Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

Parent gene

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_3 g4155 g4155.t14 TSS g4155.t14 31020408 31020408
chr_3 g4155 g4155.t14 isoform g4155.t14 31020547 31027215
chr_3 g4155 g4155.t14 exon g4155.t14.exon1 31020547 31020612
chr_3 g4155 g4155.t14 cds g4155.t14.CDS1 31020547 31020612
chr_3 g4155 g4155.t14 exon g4155.t14.exon2 31025826 31025976
chr_3 g4155 g4155.t14 cds g4155.t14.CDS2 31025826 31025976
chr_3 g4155 g4155.t14 exon g4155.t14.exon3 31026100 31026258
chr_3 g4155 g4155.t14 cds g4155.t14.CDS3 31026100 31026258
chr_3 g4155 g4155.t14 exon g4155.t14.exon4 31026313 31026506
chr_3 g4155 g4155.t14 cds g4155.t14.CDS4 31026313 31026506
chr_3 g4155 g4155.t14 exon g4155.t14.exon5 31026572 31026627
chr_3 g4155 g4155.t14 cds g4155.t14.CDS5 31026572 31026627
chr_3 g4155 g4155.t14 exon g4155.t14.exon6 31026788 31027215
chr_3 g4155 g4155.t14 cds g4155.t14.CDS6 31026788 31026797
chr_3 g4155 g4155.t14 TTS g4155.t14 31027208 31027208

Sequences

>g4155.t14 Gene=g4155 Length=1054
ATGGGTTTAGATTGTGGAGCAAGTTTGATTAAATATGTTCTTTTTATATTCAATTTAATC
TGTGCGATTGGCGGTATTGCTTTGATGGTAGTAGGTGGAATAGCACTAAAGAAAATTGGA
GATGTAAAAGAAGTATTTGAGGACGGAAATCATCCTGGTATTTTTCCTGCATTCATTATA
GCAATTGGAGCATTGGTCTTTGTTATTGCATTTTTCGGTTGTTGTGGAGCTATTCGTGAA
TCGCAATGTCTTCTCAACCTCTATTCATTGTGTCTACTTTGCCTTGTCGTTTTGCAAGTA
GTGCTTGCAATTTTTGTCTTTGTCTATAATGAAGATGTTCAAAGAGGCGCCCTTAAGGGA
TGGGATAAAATCTGGACTTTGCAATGCTGTGGAAGTACGACTTTTTTGGACTATGGTGTG
ACTTTACCTAGTAGCTGTTGTGATCCAGAAGCATCTTCTTGTAATCAACTAGTTGCATAT
AAAACAGGATGTCGACCACAAATCAAATATGTCGTTCAAAATTCAGCTCAATGGATTGCC
TATTTATCGATCATTATGGCCCTTGTTGAGCTGGTTGGAGTAATTTTTGGTTGCTGTCTT
AGCTCAAACATTCGAAATTCATCTAGATATGAGTAAAGAATCAACAATTATTCTCACACC
ATCAACATTTTGGGCGATAACTATTAAATATTTAATTAACAAACATTTTTCTCATATACA
CACATAAAAACACTCCTTTATATTTTTTTCATTAGTATTGAAATATATGAGAACCTTAAC
AAAAAAAATACATTAAAAAATCAACCTATATGCATATATCATCAGCCATAATTGCTTACT
TTTATATTATTCATGCACGCTTAAATCATATCGTTTATGTAATCAATTAGAGATATTCGT
CAAATTTAGCGTATTTGTGTATCTCTAAATATACACATGTATTTTTTTAACGAAATAAGA
GTTTCTCATCATATACGCTTAAGTCATTTGATGTCAGTTTCCAAAAAATACGTTTTAGTT
GAAATGTAAAAAAATAAAATATTTTTGTCAAAAA

>g4155.t14 Gene=g4155 Length=211
MGLDCGASLIKYVLFIFNLICAIGGIALMVVGGIALKKIGDVKEVFEDGNHPGIFPAFII
AIGALVFVIAFFGCCGAIRESQCLLNLYSLCLLCLVVLQVVLAIFVFVYNEDVQRGALKG
WDKIWTLQCCGSTTFLDYGVTLPSSCCDPEASSCNQLVAYKTGCRPQIKYVVQNSAQWIA
YLSIIMALVELVGVIFGCCLSSNIRNSSRYE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g4155.t14 PANTHER PTHR19282:SF273 TETRASPANIN 4 207 5.5E-28
3 g4155.t14 PANTHER PTHR19282 TETRASPANIN 4 207 5.5E-28
18 g4155.t14 PIRSF PIRSF002419 Tetraspanin 1 126 1.9E-24
19 g4155.t14 PIRSF PIRSF002419 Tetraspanin 124 211 5.6E-14
5 g4155.t14 PRINTS PR00259 Transmembrane four family signature 12 35 5.7E-31
4 g4155.t14 PRINTS PR00259 Transmembrane four family signature 52 78 5.7E-31
7 g4155.t14 PRINTS PR00259 Transmembrane four family signature 79 107 5.7E-31
6 g4155.t14 PRINTS PR00259 Transmembrane four family signature 178 204 5.7E-31
1 g4155.t14 Pfam PF00335 Tetraspanin family 10 201 8.1E-35
9 g4155.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
16 g4155.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
13 g4155.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 35 53 -
15 g4155.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 78 -
11 g4155.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 79 84 -
14 g4155.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 85 109 -
12 g4155.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 110 177 -
17 g4155.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 178 200 -
10 g4155.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 201 211 -
24 g4155.t14 ProSitePatterns PS00421 Transmembrane 4 family signature. 63 85 -
8 g4155.t14 SUPERFAMILY SSF48652 Tetraspanin 124 172 2.22E-7
21 g4155.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
20 g4155.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 55 77 -
22 g4155.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -
23 g4155.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 178 200 -

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:0016021 integral component of membrane CC

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