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.t34 TTS g8185.t34 28961757 28961757
chr_2 g8185 g8185.t34 isoform g8185.t34 28961822 28962780
chr_2 g8185 g8185.t34 exon g8185.t34.exon1 28961822 28962219
chr_2 g8185 g8185.t34 cds g8185.t34.CDS1 28962164 28962219
chr_2 g8185 g8185.t34 exon g8185.t34.exon2 28962309 28962702
chr_2 g8185 g8185.t34 cds g8185.t34.CDS2 28962309 28962642
chr_2 g8185 g8185.t34 exon g8185.t34.exon3 28962761 28962780
chr_2 g8185 g8185.t34 TSS g8185.t34 28963786 28963786

Sequences

>g8185.t34 Gene=g8185 Length=812
ATCAGTGTATGGTTTCAACGTACGCATTTTTCCTACTCATATTGGTCGTTCTTCAAATTG
TTATCGCCGTTTTCGCATTTATGTATACAGGTGAACTTGCGAAAGCTGCAGAAAATGGTT
TCAATAAATTATGGGAAAACAGAGACACAAATAATGAAACAAGAATTGCTATCGAAGGCA
TACAACGCGGACTTCGCTGTTGTGGTTCAGCTGGACCCGCTGATTGGGGATTATTAAATA
TTCCATCTTCATGCTGTGATGATGGAGTTATAGCATGCACAGTGTCGAACGCTCATTCAG
ATGGATGTGCTACACTTCTTTCCAACTTTGTCAATGATAGTGGACTCTTGATTGCATGGT
TTGCAATTGTCTTTGCTGGTATTGAACTTGTTGGTGTAATCTTCGCCTGTTGTCAAGACA
ATATGCATAAAAGTCTACAATGTACTAATTTAATAGAAATAGGAATTTGAAACCAAATTT
TTTTTGTTTAAAAATCTATTCTTATATATCTCTAATTAATTTTATAGTACAGCTATAGAT
TGATGTCAAGAAAATAAGTTTTTTTTTCACTTATTTATCGCTATTAATTGATAAGTAAGT
TGAATACATATGTGTGTGTGTCACCATTTCTTTGGTCTATCATCTATATCAATTCTAATT
TATCAATCTTAAGTTTCTGTGTGAGCTAGGCACGGCAGATAAGGGTCACTTCTATATATG
CAAGAGAAAAGAAAACACGCCAACAAGAAATATTTTATTTTTATTTTAGTCTTTTAAAAT
ATGTTATCGTAAAAATTGTATATTTTTTATTC

>g8185.t34 Gene=g8185 Length=129
MYTGELAKAAENGFNKLWENRDTNNETRIAIEGIQRGLRCCGSAGPADWGLLNIPSSCCD
DGVIACTVSNAHSDGCATLLSNFVNDSGLLIAWFAIVFAGIELVGVIFACCQDNMHKSLQ
CTNLIEIGI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g8185.t34 CDD cd03127 tetraspanin_LEL 2 86 3.14559E-17
6 g8185.t34 Gene3D G3DSA:1.10.1450.10 Tetraspanin 3 85 2.4E-13
2 g8185.t34 PANTHER PTHR19282 TETRASPANIN 8 114 1.3E-14
3 g8185.t34 PANTHER PTHR19282:SF252 TETRASPANIN 8 114 1.3E-14
1 g8185.t34 Pfam PF00335 Tetraspanin family 6 111 8.6E-15
8 g8185.t34 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 89 -
9 g8185.t34 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 90 110 -
7 g8185.t34 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 111 129 -
5 g8185.t34 SUPERFAMILY SSF48652 Tetraspanin 2 86 3.4E-15
4 g8185.t34 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