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 g4154 g4154.t4 isoform g4154.t4 31019483 31020175
chr_3 g4154 g4154.t4 exon g4154.t4.exon1 31019483 31020021
chr_3 g4154 g4154.t4 cds g4154.t4.CDS1 31019499 31020021
chr_3 g4154 g4154.t4 exon g4154.t4.exon2 31020105 31020175
chr_3 g4154 g4154.t4 cds g4154.t4.CDS2 31020105 31020175
chr_3 g4154 g4154.t4 TTS g4154.t4 31020285 31020285
chr_3 g4154 g4154.t4 TSS g4154.t4 NA NA

Sequences

>g4154.t4 Gene=g4154 Length=610
TTTCGGAATTATTTTTATGTTTCATGGTGCACTAACGCTCGTCAAAATCGGTGAAATAAG
GTCATTTTTGCAAAATAAGCATTTAGATGATGCATCACTTGTTCCAACAATTATAATATG
TGTAGGAATATTCATTTTTATTATTTCATTTCTTGGATGCTGTGGTGCAATGAAACAACA
GAGAATATTTCTCGAAACCTATTCGATATGTCTCCTTGTACTGGTGATGATGCAAATTTT
ACTTGCTCTTCTGATTTTTTTATTTTTGGAAGATATTAATCGTGATAGTTTGAAAAGTTT
TACAAAAATGTGGCGTTTAAGATTTATGCCAGATAACCAAATGATGATTGATATGGTTCA
AACTTCAATTGAATGTTGTGGCTCAAATAACATGGATGACTATAGTTTTGATCGAATACC
ACTTTCATGTTGTAAAAAGAATGTAGATGCATGCTCAAAAGATATTGCATTTCCATCAGG
CTGTAAATTACTCTTAAAAAATGCAATAAATTCATCGGGACATACAATTTCATACTTATC
ATCAATGATGGGATTTTTACTAAGTTCGCAGATAAGGAAAAATCATGGAAAAGGACGATG
TTGTACTTAA

>g4154.t4 Gene=g4154 Length=197
MFHGALTLVKIGEIRSFLQNKHLDDASLVPTIIICVGIFIFIISFLGCCGAMKQQRIFLE
TYSICLLVLVMMQILLALLIFLFLEDINRDSLKSFTKMWRLRFMPDNQMMIDMVQTSIEC
CGSNNMDDYSFDRIPLSCCKKNVDACSKDIAFPSGCKLLLKNAINSSGHTISYLSSMMGF
LLSSQIRKNHGKGRCCT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g4154.t4 CDD cd03127 tetraspanin_LEL 85 166 3.31927E-12
7 g4154.t4 Gene3D G3DSA:1.10.1450.10 Tetraspanin 85 156 1.7E-9
2 g4154.t4 PANTHER PTHR19282 TETRASPANIN 25 156 5.3E-22
3 g4154.t4 PANTHER PTHR19282:SF471 CD63 ANTIGEN 25 156 5.3E-22
5 g4154.t4 PRINTS PR00259 Transmembrane four family signature 26 52 2.7E-12
4 g4154.t4 PRINTS PR00259 Transmembrane four family signature 53 81 2.7E-12
1 g4154.t4 Pfam PF00335 Tetraspanin family 15 179 1.4E-29
9 g4154.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 27 -
11 g4154.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 28 52 -
8 g4154.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 53 63 -
12 g4154.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 64 84 -
10 g4154.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 85 197 -
6 g4154.t4 SUPERFAMILY SSF48652 Tetraspanin 83 166 3.27E-11
14 g4154.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 27 49 -
15 g4154.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 62 84 -

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