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.t58 TTS g8185.t58 28961757 28961757
chr_2 g8185 g8185.t58 isoform g8185.t58 28962527 28963602
chr_2 g8185 g8185.t58 exon g8185.t58.exon1 28962527 28962702
chr_2 g8185 g8185.t58 cds g8185.t58.CDS1 28962528 28962702
chr_2 g8185 g8185.t58 exon g8185.t58.exon2 28962756 28962952
chr_2 g8185 g8185.t58 cds g8185.t58.CDS2 28962756 28962952
chr_2 g8185 g8185.t58 exon g8185.t58.exon3 28963537 28963602
chr_2 g8185 g8185.t58 cds g8185.t58.CDS3 28963537 28963602
chr_2 g8185 g8185.t58 TSS g8185.t58 28963786 28963786

Sequences

>g8185.t58 Gene=g8185 Length=439
ATGGGTTTAACTTGTGGAGCATCTGTGGTCAAATATGGCATTTTTATTTTCAACCTTCTT
TGTGCTGTTGCTGGTATAGCATTGATCGTTGTTGGTGCAATTCCACTATTCAAACTTGAT
GACATTCGAGATGCCTTTCCTGAAAACAATCCAGCCACTGTTCCCATCATAATCGTCGTT
CTTGGCTCGATAATCTTTATCATCAGTTTCTTTGGATGTTGTGGAGCTATTAGAGAAAAT
CAGTGTATGGTTTCAACGGTACGTACGCATTTTTCCTACTCATATTGGTCGTTCTTCAAA
TTGTTATCGCCGTTTTCGCATTTATGTATACAGGTGAACTTGCGAAAGCTGCAGAAAATG
GTTTCAATAAATTATGGGAAAACAGAGACACAAATAATGAAACAAGAATTGCTATCGAAG
GCATACAACGCGGACTTCG

>g8185.t58 Gene=g8185 Length=146
MGLTCGASVVKYGIFIFNLLCAVAGIALIVVGAIPLFKLDDIRDAFPENNPATVPIIIVV
LGSIIFIISFFGCCGAIRENQCMVSTVRTHFSYSYWSFFKLLSPFSHLCIQVNLRKLQKM
VSINYGKTETQIMKQELLSKAYNADF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g8185.t58 PANTHER PTHR19282 TETRASPANIN 6 86 6.8E-16
3 g8185.t58 PANTHER PTHR19282:SF471 CD63 ANTIGEN 6 86 6.8E-16
5 g8185.t58 PRINTS PR00259 Transmembrane four family signature 12 35 1.0E-10
4 g8185.t58 PRINTS PR00259 Transmembrane four family signature 51 77 1.0E-10
1 g8185.t58 Pfam PF00335 Tetraspanin family 10 86 1.1E-17
9 g8185.t58 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
13 g8185.t58 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
11 g8185.t58 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 35 53 -
12 g8185.t58 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 77 -
10 g8185.t58 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 78 146 -
8 g8185.t58 ProSitePatterns PS00421 Transmembrane 4 family signature. 62 84 -
7 g8185.t58 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
6 g8185.t58 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 54 76 -

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