General information for g11830.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as H(+)/Cl(-) exchange transporter 3.
Parent gene
- The parent gene g11830 is located on chr_1: 18615954..18617265 (- 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 | g11830 | g11830.t1 | TTS | g11830.t1 | 18614039 | 18614039 |
| chr_1 | g11830 | g11830.t1 | isoform | g11830.t1 | 18614422 | 18617265 |
| chr_1 | g11830 | g11830.t1 | exon | g11830.t1.exon1 | 18614422 | 18614512 |
| chr_1 | g11830 | g11830.t1 | cds | g11830.t1.CDS1 | 18614422 | 18614512 |
| chr_1 | g11830 | g11830.t1 | exon | g11830.t1.exon2 | 18614595 | 18614701 |
| chr_1 | g11830 | g11830.t1 | cds | g11830.t1.CDS2 | 18614595 | 18614701 |
| chr_1 | g11830 | g11830.t1 | exon | g11830.t1.exon3 | 18614762 | 18614868 |
| chr_1 | g11830 | g11830.t1 | cds | g11830.t1.CDS3 | 18614762 | 18614868 |
| chr_1 | g11830 | g11830.t1 | exon | g11830.t1.exon4 | 18614923 | 18615086 |
| chr_1 | g11830 | g11830.t1 | cds | g11830.t1.CDS4 | 18614923 | 18615086 |
| chr_1 | g11830 | g11830.t1 | exon | g11830.t1.exon5 | 18615151 | 18616693 |
| chr_1 | g11830 | g11830.t1 | cds | g11830.t1.CDS5 | 18615151 | 18616693 |
| chr_1 | g11830 | g11830.t1 | exon | g11830.t1.exon6 | 18616754 | 18616823 |
| chr_1 | g11830 | g11830.t1 | cds | g11830.t1.CDS6 | 18616754 | 18616823 |
| chr_1 | g11830 | g11830.t1 | exon | g11830.t1.exon7 | 18616942 | 18617023 |
| chr_1 | g11830 | g11830.t1 | cds | g11830.t1.CDS7 | 18616942 | 18617023 |
| chr_1 | g11830 | g11830.t1 | exon | g11830.t1.exon8 | 18617147 | 18617265 |
| chr_1 | g11830 | g11830.t1 | cds | g11830.t1.CDS8 | 18617147 | 18617265 |
| chr_1 | g11830 | g11830.t1 | TSS | g11830.t1 | 18617414 | 18617414 |
Sequences
>g11830.t1 Gene=g11830 Length=2283
ATGGACGAAAACGAATTTAAAATGTCGTCATCATCTTCTCAAGATTTTACTGGAGCCGAT
GCTTTTGAAGAGGATTGGTATCAAAATTCTCCTTATTCAGATTTCTACACAATTGATTGG
TTAAAAGATCTTGCAAGAGATCGTATGCGACATCGATATATTCTAAAGAGACGACAAAAT
TCATTATGGGAACTTATAAAGGGCGCTCACGACGCACTTTCAGGCTGGTTGTGTGTGTTA
CTCGTAGGATTAGTAACAGGATGTGTTGCAGGTGTGATTGATATTGGTGCAAGTTGGATG
ACAGATTTGAAATTTGGAATTTGTCCACAAGCATTTTGGTTAAATAGAGAACAATGTTGT
TGGTCATCAAATGAAACGACTTTTGATGCAGGAAATTGTTCACAATGGGTTACATGGTCT
GAGATCCTTGTGAGTGCCAAAGAAGGTTTTGGAGCGTATATTGTGATGTACTTTTTCTAC
ATATTCTGGGCGTTGTTTTTCTCAACTCTTGCTGCACTTCTTGTAAAAAATTTTGCTCCA
TATGCCTGTGGATCAGGTATTCCAGAAATAAAAACTATTTTATCAGGATTTATAATACGA
GGCTATTTGGGCAAATGGACACTTATCATTAAATCTGTTGGAATCATACTGTCTGTATCA
GCAGGTTTGAGTTTGGGAAAAGAAGGCCCAATGGTGCATATTGCCAGTTGTATTGGAAAC
ATACTCTCTTATCTATTTCCCAAGTATGGTCGGAATGAAGCAAAAAAGCGTGAAATTTTA
TCCGCTGCAGCTGCTGCAGGAGTCAGTGTTGCTTTTGGCGCACCCATTGGAGGCGTTTTA
TTCAGTTTGGAAGAAGTATCATATTACTTTCCTCTGAAAACACTTTGGAGATCATTCTTT
TGTGCTCTAATCGCTGCCTTCATCTTACGCTCTATCAATCCATTTGGAAATGAACATTCT
GTATTGTTTTTCGTAGAATATTCAAAACCATGGATTTTTGTTGAACTTTTACCATTCATA
TTTCTTGGAGTGATGGGTGGTTGTATAGGAACACTATTCATTAAAGCGAACATTTATTGG
TGTAAATTCAGAAAATGTAGCAAATTAGGACAATATCCAGTTGCTGAAGTACTCATTGTC
ACGCTTATTACTGCTGTCATTGCATTTCCAAATCCCTACACACGAATGAATACAAGTGAA
CTCATTTATTTACTCTTCAGTCAATGCGGTATTTCAAGTGGTGATCCAATATGTGACTAC
AAGAGAAATTTTACAAATGTGAATCAAGCAATTGAGATAGCTGCTGCTGGTCCTGGTGTT
TATAAAGCCATCTGGCTTTTAATACTTGCAATGATTGTAAAACTTATTATGACAATCTTT
ACATTTGGAATCAAAGTTCCCTGTGGTTTATTCATTCCATCCTTGTGCTTAGGAGCGATT
ATGGGTCGAATCGTTGGAATTTGTATGGAACAATTGGCATATAATTATTCAAAGAATTGG
ATATTTTCGGGTGAATGTACTCAAGGTGATGATTGTATTCAGCCTGGTTTGTATGCAATG
GTGGGAGCTGCTGCAGTTTTAGGTGGAGTAACACGAATGACAGTTTCTTTAGTTGTTATA
ATGTTTGAACTAACTGGCGGTGTTCGATATATTGTGCCATTGATGGCTGCGGCAATGGCT
TCAAAATGGGTTGGCGATGCATTAGGAAGACAAGGTATTTACGATGCACATATCGCACTA
AATGGCTATCCCTTCCTTGATAGTAAAGACGAATTTCAACACACAACATTAGCGGGTGAT
GTCATGCAACCAAAACGTAATGAAGGATTAGCAGTTATAACTCAAGATTCCATGACAATA
GATGATATTGAAGTTCTTCTCAAAGACACTGAACATAATGGATATCCTGTTGTTGTTTCA
CGTGAAAATCAATATTTAGTAGGATTTGTTTTAAGAAGAGACTTGAATTTGGCATTAGCA
AATGCAAAAAGAAATTTCGATGGAATTTCTGGTCAATCATTAGTGATATTCACTAATAGT
AGCAGTGTGCAAAATCTTGGCCCTGCACCACTTAAATTGAAAAAAATATTGGATATGGCA
CCTATTACAGTAACTGATCAAACTCCTATGGAAACAGTTGTAGATATGTTTAGAAAGTTA
GGCTTACGACAAACTTTAGTCACTCATAACGGTCGTCTATTGGGTGTAATAACAAAGAAA
GATGTTTTGAGACATGTTAAACAAATGGATAATGAAGATCCAACTACAATATTATTCAAT
TAA
>g11830.t1 Gene=g11830 Length=760
MDENEFKMSSSSSQDFTGADAFEEDWYQNSPYSDFYTIDWLKDLARDRMRHRYILKRRQN
SLWELIKGAHDALSGWLCVLLVGLVTGCVAGVIDIGASWMTDLKFGICPQAFWLNREQCC
WSSNETTFDAGNCSQWVTWSEILVSAKEGFGAYIVMYFFYIFWALFFSTLAALLVKNFAP
YACGSGIPEIKTILSGFIIRGYLGKWTLIIKSVGIILSVSAGLSLGKEGPMVHIASCIGN
ILSYLFPKYGRNEAKKREILSAAAAAGVSVAFGAPIGGVLFSLEEVSYYFPLKTLWRSFF
CALIAAFILRSINPFGNEHSVLFFVEYSKPWIFVELLPFIFLGVMGGCIGTLFIKANIYW
CKFRKCSKLGQYPVAEVLIVTLITAVIAFPNPYTRMNTSELIYLLFSQCGISSGDPICDY
KRNFTNVNQAIEIAAAGPGVYKAIWLLILAMIVKLIMTIFTFGIKVPCGLFIPSLCLGAI
MGRIVGICMEQLAYNYSKNWIFSGECTQGDDCIQPGLYAMVGAAAVLGGVTRMTVSLVVI
MFELTGGVRYIVPLMAAAMASKWVGDALGRQGIYDAHIALNGYPFLDSKDEFQHTTLAGD
VMQPKRNEGLAVITQDSMTIDDIEVLLKDTEHNGYPVVVSRENQYLVGFVLRRDLNLALA
NAKRNFDGISGQSLVIFTNSSSVQNLGPAPLKLKKILDMAPITVTDQTPMETVVDMFRKL
GLRQTLVTHNGRLLGVITKKDVLRHVKQMDNEDPTTILFN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 44 | g11830.t1 | CDD | cd03684 | ClC_3_like | 83 | 586 | 0.0 |
| 43 | g11830.t1 | CDD | cd04591 | CBS_pair_voltage-gated_CLC_euk_bac | 597 | 745 | 1.38945E-46 |
| 16 | g11830.t1 | Gene3D | G3DSA:1.10.3080.10 | Clc chloride channel | 130 | 588 | 3.0E-143 |
| 17 | g11830.t1 | Gene3D | G3DSA:3.90.1280.20 | - | 594 | 749 | 3.8E-70 |
| 15 | g11830.t1 | Gene3D | G3DSA:3.10.580.20 | - | 611 | 701 | 3.8E-70 |
| 4 | g11830.t1 | PANTHER | PTHR45711 | CHLORIDE CHANNEL PROTEIN | 20 | 754 | 0.0 |
| 5 | g11830.t1 | PANTHER | PTHR45711:SF8 | H(+)/CL(-) EXCHANGE TRANSPORTER 3 | 20 | 754 | 0.0 |
| 10 | g11830.t1 | PRINTS | PR00762 | Chloride channel signature | 180 | 197 | 5.8E-75 |
| 12 | g11830.t1 | PRINTS | PR00762 | Chloride channel signature | 211 | 230 | 5.8E-75 |
| 6 | g11830.t1 | PRINTS | PR00762 | Chloride channel signature | 265 | 284 | 5.8E-75 |
| 9 | g11830.t1 | PRINTS | PR00762 | Chloride channel signature | 466 | 486 | 5.8E-75 |
| 11 | g11830.t1 | PRINTS | PR00762 | Chloride channel signature | 516 | 532 | 5.8E-75 |
| 8 | g11830.t1 | PRINTS | PR00762 | Chloride channel signature | 534 | 553 | 5.8E-75 |
| 7 | g11830.t1 | PRINTS | PR00762 | Chloride channel signature | 573 | 587 | 5.8E-75 |
| 3 | g11830.t1 | Pfam | PF00654 | Voltage gated chloride channel | 167 | 566 | 1.7E-99 |
| 1 | g11830.t1 | Pfam | PF00571 | CBS domain | 611 | 659 | 0.0014 |
| 2 | g11830.t1 | Pfam | PF00571 | CBS domain | 700 | 746 | 7.9E-7 |
| 19 | g11830.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 72 | - |
| 42 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 73 | 93 | - |
| 30 | g11830.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 94 | 149 | - |
| 31 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 150 | 175 | - |
| 24 | g11830.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 176 | 207 | - |
| 34 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 208 | 225 | - |
| 25 | g11830.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 226 | 230 | - |
| 35 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 231 | 247 | - |
| 20 | g11830.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 248 | 258 | - |
| 37 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 259 | 283 | - |
| 29 | g11830.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 284 | 294 | - |
| 36 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 295 | 312 | - |
| 23 | g11830.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 313 | 331 | - |
| 38 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 332 | 354 | - |
| 27 | g11830.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 355 | 373 | - |
| 40 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 374 | 393 | - |
| 21 | g11830.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 394 | 442 | - |
| 41 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 443 | 464 | - |
| 26 | g11830.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 465 | 469 | - |
| 39 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 470 | 489 | - |
| 22 | g11830.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 490 | 516 | - |
| 33 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 517 | 542 | - |
| 28 | g11830.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 543 | 547 | - |
| 32 | g11830.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 548 | 565 | - |
| 18 | g11830.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 566 | 760 | - |
| 59 | g11830.t1 | ProSiteProfiles | PS51371 | CBS domain profile. | 602 | 668 | 8.529 |
| 58 | g11830.t1 | ProSiteProfiles | PS51371 | CBS domain profile. | 697 | 755 | 10.748 |
| 57 | g11830.t1 | SMART | SM00116 | cbs_1 | 610 | 660 | 0.011 |
| 56 | g11830.t1 | SMART | SM00116 | cbs_1 | 700 | 747 | 9.8E-9 |
| 14 | g11830.t1 | SUPERFAMILY | SSF81340 | Clc chloride channel | 58 | 589 | 6.41E-124 |
| 13 | g11830.t1 | SUPERFAMILY | SSF54631 | CBS-domain pair | 589 | 746 | 4.42E-28 |
| 49 | g11830.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 73 | 95 | - |
| 53 | g11830.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 153 | 175 | - |
| 48 | g11830.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 202 | 224 | - |
| 50 | g11830.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 229 | 246 | - |
| 51 | g11830.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 259 | 281 | - |
| 54 | g11830.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 331 | 353 | - |
| 55 | g11830.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 374 | 396 | - |
| 52 | g11830.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 443 | 464 | - |
| 46 | g11830.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 471 | 493 | - |
| 45 | g11830.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 513 | 530 | - |
| 47 | g11830.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 537 | 559 | - |
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:0016020 | membrane | CC |
| GO:0055085 | transmembrane transport | BP |
| GO:0006821 | chloride transport | BP |
| GO:0005247 | voltage-gated chloride channel activity | MF |
KEGG
Orthology
- This transcript has been annotated with K05012 (chloride channel 3/4/5)
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.
