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_2 g8185 g8185.t5 isoform g8185.t5 28961709 28962699
chr_2 g8185 g8185.t5 exon g8185.t5.exon1 28961709 28962247
chr_2 g8185 g8185.t5 TTS g8185.t5 28961757 28961757
chr_2 g8185 g8185.t5 cds g8185.t5.CDS1 28962181 28962247
chr_2 g8185 g8185.t5 exon g8185.t5.exon2 28962305 28962699
chr_2 g8185 g8185.t5 cds g8185.t5.CDS2 28962305 28962642
chr_2 g8185 g8185.t5 TSS g8185.t5 NA NA

Sequences

>g8185.t5 Gene=g8185 Length=934
GCATTTTTCCTACTCATATTGGTCGTTCTTCAAATTGTTATCGCCGTTTTCGCATTTATG
TATACAGGTGAACTTGCGAAAGCTGCAGAAAATGGTTTCAATAAATTATGGGAAAACAGA
GACACAAATAATGAAACAAGAATTGCTATCGAAGGCATACAACGCGGACTTCGCTGTTGT
GGTTCAGCTGGACCCGCTGATTGGGGATTATTAAATATTCCATCTTCATGCTGTGATGAT
GGAGTTATAGCATGCACAGTGTCGAACGCTCATTCAGATGGATGTGCTACACTTCTTTCC
AACTTTGTCAATGATAGTGGACTCTTGATTGCATGGTTTGCAATTGTCTTTGCTGGTATT
GAACTTGTTGGTGTAATCTTCGCCTGTTGTCGTAATGGCCAATTCAATTCGAAATGCAAA
CAGAAGACAATATGCATAAAAGTCTACAATGTACTAATTTAATAGAAATAGGAATTTGAA
ACCAAATTTTTTTTGTTTAAAAATCTATTCTTATATATCTCTAATTAATTTTATAGTACA
GCTATAGATTGATGTCAAGAAAATAAGTTTTTTTTTCACTTATTTATCGCTATTAATTGA
TAAGTAAGTTGAATACATATGTGTGTGTGTCACCATTTCTTTGGTCTATCATCTATATCA
ATTCTAATTTATCAATCTTAAGTTTCTGTGTGAGCTAGGCACGGCAGATAAGGGTCACTT
CTATATATGCAAGAGAAAAGAAAACACGCCAACAAGAAATATTTTATTTTTATTTTAGTC
TTTTAAAATATGTTATCGTAAAAATTGTATATTTTTTATTCTTTAAATGTTGTACTTTGA
ACACAAGTTGTTAATAAACAAAGTAAAAGTGATTAGTTCTTGAATAAATGCTTTAAATAT
CAACAATTCAAAATTTAATGGTAAATAATAATTT

>g8185.t5 Gene=g8185 Length=134
MYTGELAKAAENGFNKLWENRDTNNETRIAIEGIQRGLRCCGSAGPADWGLLNIPSSCCD
DGVIACTVSNAHSDGCATLLSNFVNDSGLLIAWFAIVFAGIELVGVIFACCRNGQFNSKC
KQKTICIKVYNVLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g8185.t5 CDD cd03127 tetraspanin_LEL 2 86 6.10482E-17
6 g8185.t5 Gene3D G3DSA:1.10.1450.10 Tetraspanin 3 85 2.7E-13
2 g8185.t5 PANTHER PTHR19282 TETRASPANIN 8 112 2.8E-14
3 g8185.t5 PANTHER PTHR19282:SF252 TETRASPANIN 8 112 2.8E-14
1 g8185.t5 Pfam PF00335 Tetraspanin family 6 111 9.8E-15
8 g8185.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 89 -
9 g8185.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 90 111 -
7 g8185.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 112 134 -
5 g8185.t5 SUPERFAMILY SSF48652 Tetraspanin 2 86 3.79E-15
4 g8185.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 89 111 -

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