General information for g13578.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13578 is located on chr_1: 31026381..31028286 (- 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 | g13578 | g13578.t1 | isoform | g13578.t1 | 31026381 | 31028286 |
| chr_1 | g13578 | g13578.t1 | exon | g13578.t1.exon1 | 31026381 | 31026701 |
| chr_1 | g13578 | g13578.t1 | cds | g13578.t1.CDS1 | 31026381 | 31026701 |
| chr_1 | g13578 | g13578.t1 | exon | g13578.t1.exon2 | 31026754 | 31028286 |
| chr_1 | g13578 | g13578.t1 | cds | g13578.t1.CDS2 | 31026754 | 31028286 |
| chr_1 | g13578 | g13578.t1 | TSS | g13578.t1 | NA | NA |
| chr_1 | g13578 | g13578.t1 | TTS | g13578.t1 | NA | NA |
Sequences
>g13578.t1 Gene=g13578 Length=1854
ATGTACACAAAAAATATTTTACTAATAAATTTGATCACAATCATAAATTCTTTTAAAATT
TCTGTTGAACAGCAGAAAATAAACGATTTAGTTAAAGTTATTGATGAAATTTTGGAAAAT
GAAGAAATTGAGAACACAAAAATCACAAACATTTTTAATTTTTCGAATGCAACAAATGAA
GATTTTATTAAAAATCTTTACCAAGCTATCGGATCTAAAGTGACAATTGAAGAATTTCCA
AAAATTCGAAACTCAGCTTTCAAAAACCCTTGGTTTTTTAACATTTTTATTATTGATTCA
TCAGAGCAATTTAAGGCTGTTAATTTCACAAACTATCGATTTATCACGGGAGGTTATTTC
ATAATAATTTTTGAAAACGGAACTAAAGAAAATTCTCATATGATTTTTAAATTACTTTGG
GAATTGTACATTTATAACATTAATTTATTAAGAAGAGAAAATGATACAATTATTGTTGAA
ACATTCATTCCATTTCAACCATCAAAATGCAATCAAACGGAACCAGTTGAAATTGCAAAA
TATAAAAATAAAAAATTCATCACAAAACCTGAAAATTTCTTTCCTCAAAAATTCAGAAAC
TTCCATTGTTGTCCAATAAAAGTGATAACATTTGAAACAATCGGACCAGCAGTTTTGAAA
CAAGATTTTTCTAATGGAACACAAAAACTTTTTGGTCGTGATATTGAAATTTTCAATACG
ATGTCTGAGCTTCTCAATTTCAAAGCGAATATTTTCTACAATTCAACTTACGGTGGCTGG
GGAAACATCAATATGAAAGGCGAAGGTTATGGAGCAATGATGGATGTGAAATTGCGTGGT
GCAGATTTGACTTTTGGAAATTTAAATTTAAAACTTGAGAGAGGAATACATTTGGCTTAC
ACTATACCATATTCAGCTGATATACTTTTATTTATGATTCCACCTAGTAAACAATTGAGC
ACATTTCAGAAATTACTTCGACCATTTGATAAATTACTATGGATTACTCTATGTTGTGTG
CTTTTTATTGCAATACTAACCATAACTATTTTAGAGCTACAGTCAAACGAAATCAGAGAT
TTTATCATTGGTCAACGAGTTAGAGCTGCATATTTGAATGTTTTGATTGCTTTAATTGGT
GGTGCACAAAATAAATTGCCAAGAGGAAATTTTGGGAGATTTTTGTTGATGATTTTTCTT
TTATTTTGTTTAGTGATACGAACACTTTATCAAGGGTCACTTTTTCGCTTTTTGCAATCG
TCTGCTACTGAAAAAGATCCGGAGACAATCGAGGAAATGGCGATAGAGCGGAATTTTACT
TTTTACATGATTTTATCGTACAGTGAATTTAGTAGAGAAAATGTTTACATGAAAGGCAAA
ATTGAGGTCATCAACCCACTTAGAATTAAAGAGCTACTGTCGAATGTTTTGGATCAACAT
TTTCAAGGAAGTTTAATGTTAAAAATATCACAAGTATTATACAGTAATCGTGAAAGAGCT
TTGCATGGTCAACAACTTTATAAAGTTTGTAAGGAATATTTTATGGTAATCCCAATAGTA
ATGTACATGCCTAAAAATAGTTTTTTGATAGATCCTTTTAATAAATTATTACTTCTATTT
CAACAATCTGGTTTGCTCAACTATTGGACTTCAATAAATGAAGACATGAAGTTTCTTGAC
TTCAAAACTGACACAAGCGATCCAAAAGAACTTACACTTGAGCATTTGTCAGGGCCATTT
AAAATATTATTTGTTGGTTGCTTCATTTCCGCTTTTGGATTTCTTATAGAAATATTATGG
TTTAAGATGAAAAGAAAACGTGACAACAAGAGAAGAAACAATTCAATAGATTGA
>g13578.t1 Gene=g13578 Length=617
MYTKNILLINLITIINSFKISVEQQKINDLVKVIDEILENEEIENTKITNIFNFSNATNE
DFIKNLYQAIGSKVTIEEFPKIRNSAFKNPWFFNIFIIDSSEQFKAVNFTNYRFITGGYF
IIIFENGTKENSHMIFKLLWELYIYNINLLRRENDTIIVETFIPFQPSKCNQTEPVEIAK
YKNKKFITKPENFFPQKFRNFHCCPIKVITFETIGPAVLKQDFSNGTQKLFGRDIEIFNT
MSELLNFKANIFYNSTYGGWGNINMKGEGYGAMMDVKLRGADLTFGNLNLKLERGIHLAY
TIPYSADILLFMIPPSKQLSTFQKLLRPFDKLLWITLCCVLFIAILTITILELQSNEIRD
FIIGQRVRAAYLNVLIALIGGAQNKLPRGNFGRFLLMIFLLFCLVIRTLYQGSLFRFLQS
SATEKDPETIEEMAIERNFTFYMILSYSEFSRENVYMKGKIEVINPLRIKELLSNVLDQH
FQGSLMLKISQVLYSNRERALHGQQLYKVCKEYFMVIPIVMYMPKNSFLIDPFNKLLLLF
QQSGLLNYWTSINEDMKFLDFKTDTSDPKELTLEHLSGPFKILFVGCFISAFGFLIEILW
FKMKRKRDNKRRNNSID
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g13578.t1 | Gene3D | G3DSA:3.40.190.10 | - | 231 | 569 | 2.2E-34 |
| 8 | g13578.t1 | Gene3D | G3DSA:3.40.190.10 | - | 308 | 519 | 2.2E-34 |
| 7 | g13578.t1 | Gene3D | G3DSA:1.10.287.70 | - | 317 | 597 | 2.2E-34 |
| 1 | g13578.t1 | PANTHER | PTHR42643:SF16 | IONOTROPIC RECEPTOR 11A-RELATED | 118 | 609 | 2.3E-67 |
| 2 | g13578.t1 | PANTHER | PTHR42643 | IONOTROPIC RECEPTOR 20A-RELATED | 118 | 609 | 2.3E-67 |
| 11 | g13578.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 331 | - |
| 17 | g13578.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 332 | 351 | - |
| 14 | g13578.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 352 | 362 | - |
| 18 | g13578.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 363 | 382 | - |
| 12 | g13578.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 383 | 393 | - |
| 16 | g13578.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 394 | 410 | - |
| 13 | g13578.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 411 | 581 | - |
| 15 | g13578.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 582 | 601 | - |
| 10 | g13578.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 602 | 617 | - |
| 6 | g13578.t1 | SUPERFAMILY | SSF53850 | Periplasmic binding protein-like II | 206 | 549 | 4.81E-13 |
| 4 | g13578.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 332 | 351 | - |
| 5 | g13578.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 391 | 410 | - |
| 3 | g13578.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 582 | 601 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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