General information for g12894.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Transient receptor potential protein.
Parent gene
- The parent gene g12894 is located on chr_1: 26764972..26769147 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g12894 | g12894.t1 | isoform | g12894.t1 | 26764972 | 26769147 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon1 | 26764972 | 26765543 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS1 | 26764972 | 26765543 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon2 | 26765605 | 26765662 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS2 | 26765605 | 26765662 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon3 | 26765774 | 26766088 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS3 | 26765774 | 26766088 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon4 | 26766151 | 26766177 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS4 | 26766151 | 26766177 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon5 | 26766253 | 26766460 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS5 | 26766253 | 26766460 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon6 | 26766519 | 26766671 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS6 | 26766519 | 26766671 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon7 | 26766731 | 26767038 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS7 | 26766731 | 26767038 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon8 | 26767106 | 26767308 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS8 | 26767106 | 26767308 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon9 | 26767359 | 26767493 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS9 | 26767359 | 26767493 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon10 | 26767553 | 26767766 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS10 | 26767553 | 26767766 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon11 | 26767827 | 26768049 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS11 | 26767827 | 26768049 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon12 | 26768110 | 26768272 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS12 | 26768110 | 26768272 |
| chr_1 | g12894 | g12894.t1 | exon | g12894.t1.exon13 | 26768334 | 26769147 |
| chr_1 | g12894 | g12894.t1 | cds | g12894.t1.CDS13 | 26768334 | 26769147 |
| chr_1 | g12894 | g12894.t1 | TSS | g12894.t1 | NA | NA |
| chr_1 | g12894 | g12894.t1 | TTS | g12894.t1 | NA | NA |
Sequences
>g12894.t1 Gene=g12894 Length=3393
ATGCGTGTGACAGAATCAAAGGAGAATTTGGTAAATTCATCTTCAGAAAATAATATCAAT
CATATTTCGGTTGAAGCTCCTCCATCAAAACCTGAAAATGAATTTGATGTTGTGCATGAT
GTGGTTTTAACATCTGTTGAGAAAAAATTCCTATTAAGTGCAGAACGTGGTGATTGTGCA
ACTGTACGTAGACTTATTCAAGAAAATAGAGGAAGTAATGAGCTAAATATCAACTGTGTT
GATCCTCTCGAGAGGTCTGCACTTATAGCGGCAATTGAAAATGAGAATATTGAGTTAATT
CGTTTGTTACTCGAGGAAGGCATTCAAGTCAAGGATGCACTTTTGCATGCAATTAAAGAA
GAATATGTTGAAGCTGTTGAGACATTGCTTTTATGGGAAGAAGAACATCATATTGAAGGA
CAACCATATAGTTGGGAATCAGTTGATAGAAGCAGCTCAAGTTTTACTCAAGATATTACA
CCATTGATTCTTGCCGCTCATAAAAACAATTATGAAATTCTAAAAATTCTTCTAGATCGT
GGTGCATCTTTGCCTATGCCGCATGATGTAAGGTGCGGATGTGACGAGTGCGTACTGTCC
AGTGAGACAGACTCGTTGCGACATTCTCAGTCACGCATTAATGCTTACAAAGCATTATCA
GCTAGTTCATTGATTGCATTGAGTTCACGAGATCCAATATTGACTGCATTTGAGCTGAGT
TGGGAATTGAGACGTTTAAGTCGTATGGAAACGGAATTTCGAGCTGAATATAATAATATG
AGAAAAAATGTTCAAGAATTTTCGACAGCATTATTGGATCATGCAAGAACGAGCAATGAA
CTGGAAATTATGCTAAATTTCAATCCAAGCGGTGAAAATTGGGAGCCTGGCGAGCGACAA
TCATTGGATCGATTGAAATTAGCCATAAAATACAAACAAAAACAGTTTGTTGCCCACCCT
AATGTACAACAGTTACTCGCTAAAATATGGTACGAAGGTCTGCCTGGCTTTAGAAGAAAA
GGAATGGTTGGACAAATCATATCAGTTGCTCGACTTGCTTCGATGTTTCCATTTTATTGC
ACTATTTATATGCTCGCTCCTGGTTCACATCTTGGACAATTTATGAAGAAACCATTTGTC
AAGTTTATTACACACTCTGCTAGTTATGCATTCTTTTTGACTCTTCTTGGTGCTGCATCA
CAGCGTGTTGAATTTCTTCTACTCGAATGGTTTGGTAATCCATGGATACAATCGTTGCTT
GATGAATGGAAAAGACATGAAAGAGGTGCATTACCAGGACTGGCTGAAAGTGCTTGTATG
GTTTATATCATCAGTTTAATTTGGGGTGAAATTAAATCACTTTATAATGATGGACTCCTC
GATTATGTATCAGATTTATGGAATATTGTTGATTTCATTTCAAATTTCTTCTTTGTCGCG
TGGATGTCATTAAGATTTACTTCTTGGTATACTGTGACGCGTGATGCAAAAGCAGGTTTA
AATCCATGGTATCCCCGTGAAGAATGGTCGCCATATGATCCAATGTTATTGTCTGAAGGC
GCATTTGCAGCTGGAATGATTTTTTCATTTCTAAAGCTCGTTCATATATTCTCTATTAAT
CCTCATTTAGGACCGCTTCAGGTTTCGTTGGGTCGAATGATTATAGACATCATTAAATTC
TTCTTTATTTATACACTGGTGCTATTTGCTTTTGGTTGCGGATTAAATCAGCTCATGTGG
TACTATGCTGATTTAGAGAAAAACAAGTGCTACCATTTACCTAATGGAATGCCTGACTTT
GAAAATCATGAAAAAGCGTGTGCTATATGGAGACGATTTGCTAATCTTTTTGAAACATCA
CAATCACTTTTTTGGGCTTCATTTGGTCTTGTTGATCTAATGGCATTCGAGTTGACTGGA
ATTAAAAGTTTTACTCGCTTTTGGGCGCTTTTAATGTTTGGCAGTTATTCGGTCATAAAT
ATTATTGTTCTACTCAACATGTTGATTGCCATGATGTCAAATTCCTATCAAATTATTTCT
GAAAGAAGTGATACTGAATGGAAATTTGCCCGTTCTGGACTTTGGATTTCTTATTTCGAT
GATGGTGCTACTCTTCCTCCGCCATTTAATATTTTTCCTTCTATTAAACTCTTGAGATGT
GGCAATGGTGATAGATCAACAAAAAGTGTAATTAAAAGGTCAAGAGATAAAGCCCGCTTG
CGTCATGATAATGTAATGAAACTTCTTGTTCGTCGATATGTTTGTGATGAACAACGTAAG
CGTGACGATTTTGGAATAACAGAGGACGATGTAATGGAAATTAGACAGGATATAAGCACC
CTACGATACGAATTGATTGATATATTTAAACAAAATGGTATGAAGACGCCAAGAGTCGAT
AAAGACAACAGTACGGTGAGTGGTAAAAAGGGCAAAATGATGGAAAGGAGAATCTTGAAG
GACTTTCAAATTGGAATTGTTGAAGGAATTCTCAATGCATCATTGCAAGCAGCTAAAGAG
CCTAAGGATGTCTTTTCTACAATTGCTAAAGTTATTGCCAGACGAACAAGCTCAAAGAGC
AAGCAAGAAGATTGGAATCAAATTGTTCGTAAAAACACCGTTGTTCGAAATCCAATTGGC
AGTAAATCTGAAGCAATTCAACGACAAAGAACACGTCAGAGTTTACGTAAACATATTATA
GATATGCAAGCTGATGGTGTCTCGATGAATACAGAAAATCTCTTGGAATTTAATCCAAAA
TTGGCTGATGTTAGTCATCATACAAGAGTTGCTTATGCCAAATTTATGACGACAAAAATT
AAGAAAGAAATTAAATTTGAAGATGAGCAAAATGAACTTTCACTTGCACGAGGAGCACGT
GCCGTATATAAATTTAAAGTCAATGCAGGAATTCTTAAAAAACCTGGAACTGAAAATCCA
AAAGTAGAAGAAAAAGTTCAAGAAAAAGAGGAACCTGTTGCCCCACCAACTTCACCAACA
AATGAATGTGTTAAAGAAGAATTAAATACTGAAGAAAATATTCAAAAAGATTTTCGTGCT
AGAACTCCAATAAAAGAGGAAAGCGAAGAAGAACGTTCATCAACACCAGCTGACAAAATT
GATGGTGAATCAATTTCTTCCCCTCCATCAAAATCTCCAAATCGAAAATTGTCTTCACAT
AAAGACATACCAACCCCATCACATTCTATAAAATCACCAGATATTCCTGAAATAAAAACA
CCAGAACCTGAAGTGAAAATAAGAAAAAATTCAAAAGACTCGCTTCTTAATGTGCCAAAT
TCTCCACAACCGCCATCATCGCCTTCCATCAGTATTTCAAGTGATAGAGGAAAATCGAAA
ATAACTGGCAAAAATATCACTGGATGGTTATAA
>g12894.t1 Gene=g12894 Length=1130
MRVTESKENLVNSSSENNINHISVEAPPSKPENEFDVVHDVVLTSVEKKFLLSAERGDCA
TVRRLIQENRGSNELNINCVDPLERSALIAAIENENIELIRLLLEEGIQVKDALLHAIKE
EYVEAVETLLLWEEEHHIEGQPYSWESVDRSSSSFTQDITPLILAAHKNNYEILKILLDR
GASLPMPHDVRCGCDECVLSSETDSLRHSQSRINAYKALSASSLIALSSRDPILTAFELS
WELRRLSRMETEFRAEYNNMRKNVQEFSTALLDHARTSNELEIMLNFNPSGENWEPGERQ
SLDRLKLAIKYKQKQFVAHPNVQQLLAKIWYEGLPGFRRKGMVGQIISVARLASMFPFYC
TIYMLAPGSHLGQFMKKPFVKFITHSASYAFFLTLLGAASQRVEFLLLEWFGNPWIQSLL
DEWKRHERGALPGLAESACMVYIISLIWGEIKSLYNDGLLDYVSDLWNIVDFISNFFFVA
WMSLRFTSWYTVTRDAKAGLNPWYPREEWSPYDPMLLSEGAFAAGMIFSFLKLVHIFSIN
PHLGPLQVSLGRMIIDIIKFFFIYTLVLFAFGCGLNQLMWYYADLEKNKCYHLPNGMPDF
ENHEKACAIWRRFANLFETSQSLFWASFGLVDLMAFELTGIKSFTRFWALLMFGSYSVIN
IIVLLNMLIAMMSNSYQIISERSDTEWKFARSGLWISYFDDGATLPPPFNIFPSIKLLRC
GNGDRSTKSVIKRSRDKARLRHDNVMKLLVRRYVCDEQRKRDDFGITEDDVMEIRQDIST
LRYELIDIFKQNGMKTPRVDKDNSTVSGKKGKMMERRILKDFQIGIVEGILNASLQAAKE
PKDVFSTIAKVIARRTSSKSKQEDWNQIVRKNTVVRNPIGSKSEAIQRQRTRQSLRKHII
DMQADGVSMNTENLLEFNPKLADVSHHTRVAYAKFMTTKIKKEIKFEDEQNELSLARGAR
AVYKFKVNAGILKKPGTENPKVEEKVQEKEEPVAPPTSPTNECVKEELNTEENIQKDFRA
RTPIKEESEEERSSTPADKIDGESISSPPSKSPNRKLSSHKDIPTPSHSIKSPDIPEIKT
PEPEVKIRKNSKDSLLNVPNSPQPPSSPSISISSDRGKSKITGKNITGWL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g12894.t1 | Coils | Coil | Coil | 1130 | 1130 | - |
| 10 | g12894.t1 | Gene3D | G3DSA:1.25.40.20 | - | 29 | 231 | 3.9E-18 |
| 38 | g12894.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - |
| 40 | g12894.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 976 | 1130 | - |
| 42 | g12894.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 977 | 991 | - |
| 39 | g12894.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1005 | 1038 | - |
| 41 | g12894.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1039 | 1054 | - |
| 44 | g12894.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1075 | 1091 | - |
| 43 | g12894.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1107 | 1130 | - |
| 4 | g12894.t1 | PANTHER | PTHR10117 | TRANSIENT RECEPTOR POTENTIAL CHANNEL | 38 | 1081 | 0.0 |
| 5 | g12894.t1 | PANTHER | PTHR10117:SF51 | TRANSIENT RECEPTOR POTENTIAL PROTEIN | 38 | 1081 | 0.0 |
| 6 | g12894.t1 | PRINTS | PR01097 | Transient receptor potential family signature | 654 | 675 | 1.5E-20 |
| 7 | g12894.t1 | PRINTS | PR01097 | Transient receptor potential family signature | 676 | 689 | 1.5E-20 |
| 8 | g12894.t1 | PRINTS | PR01097 | Transient receptor potential family signature | 704 | 717 | 1.5E-20 |
| 2 | g12894.t1 | Pfam | PF00023 | Ankyrin repeat | 160 | 184 | 0.018 |
| 3 | g12894.t1 | Pfam | PF08344 | Transient receptor ion channel II | 192 | 254 | 6.7E-26 |
| 1 | g12894.t1 | Pfam | PF00520 | Ion transport protein | 435 | 683 | 3.4E-26 |
| 13 | g12894.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 345 | - |
| 28 | g12894.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 346 | 366 | - |
| 19 | g12894.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 367 | 385 | - |
| 25 | g12894.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 386 | 408 | - |
| 14 | g12894.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 409 | 428 | - |
| 22 | g12894.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 429 | 449 | - |
| 18 | g12894.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 450 | 468 | - |
| 26 | g12894.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 469 | 487 | - |
| 12 | g12894.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 488 | 515 | - |
| 23 | g12894.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 516 | 537 | - |
| 20 | g12894.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 538 | 556 | - |
| 24 | g12894.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 557 | 583 | - |
| 15 | g12894.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 584 | 621 | - |
| 21 | g12894.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 622 | 641 | - |
| 17 | g12894.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 642 | 646 | - |
| 27 | g12894.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 647 | 669 | - |
| 16 | g12894.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 670 | 1130 | - |
| 46 | g12894.t1 | ProSiteProfiles | PS50297 | Ankyrin repeat region circular profile. | 157 | 189 | 10.657 |
| 47 | g12894.t1 | ProSiteProfiles | PS50088 | Ankyrin repeat profile. | 157 | 189 | 10.686 |
| 37 | g12894.t1 | SMART | SM00248 | ANK_2a | 83 | 112 | 3.2 |
| 36 | g12894.t1 | SMART | SM00248 | ANK_2a | 157 | 186 | 5.6E-4 |
| 9 | g12894.t1 | SUPERFAMILY | SSF48403 | Ankyrin repeat | 52 | 184 | 4.42E-14 |
| 45 | g12894.t1 | TIGRFAM | TIGR00870 | trp: transient-receptor-potential calcium channel protein | 39 | 784 | 3.1E-249 |
| 35 | g12894.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 347 | 366 | - |
| 30 | g12894.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 386 | 408 | - |
| 29 | g12894.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 429 | 451 | - |
| 34 | g12894.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 466 | 488 | - |
| 32 | g12894.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 516 | 538 | - |
| 33 | g12894.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 553 | 575 | - |
| 31 | g12894.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 647 | 669 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0070588 | calcium ion transmembrane transport | BP |
| GO:0016020 | membrane | CC |
| GO:0055085 | transmembrane transport | BP |
| GO:0005515 | protein binding | MF |
| GO:0005216 | ion channel activity | MF |
| GO:0005262 | calcium channel activity | MF |
| GO:0006811 | ion transport | BP |
KEGG
Orthology
- This transcript has been annotated with K04967 (transient receptor potential cation channel subfamily C member 4)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed