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.t21 isoform g8185.t21 28961709 28963602
chr_2 g8185 g8185.t21 exon g8185.t21.exon1 28961709 28962247
chr_2 g8185 g8185.t21 TTS g8185.t21 28961757 28961757
chr_2 g8185 g8185.t21 cds g8185.t21.CDS1 28962204 28962247
chr_2 g8185 g8185.t21 exon g8185.t21.exon2 28962309 28962702
chr_2 g8185 g8185.t21 cds g8185.t21.CDS2 28962309 28962702
chr_2 g8185 g8185.t21 exon g8185.t21.exon3 28962770 28962939
chr_2 g8185 g8185.t21 cds g8185.t21.CDS3 28962770 28962939
chr_2 g8185 g8185.t21 exon g8185.t21.exon4 28963542 28963602
chr_2 g8185 g8185.t21 cds g8185.t21.CDS4 28963542 28963602
chr_2 g8185 g8185.t21 TSS g8185.t21 28963786 28963786

Sequences

>g8185.t21 Gene=g8185 Length=1164
ATGGGTTTAACTTGTGGAGCATCTGTGGTCAAATATGGCATTTTTATTTTCAACCTTCTT
TCATTGATCGTTGTTGGTGCAATTCCACTATTCAAACTTGATGACATTCGAGATGCCTTT
CCTGAAAACAATCCAGCCACTGTTCCCATCATAATCGTCGTTCTTGGCTCGATAATCTTT
ATCATCAGTTTCTTTGGATGTTGTGGAGCTATTAGAGAAAATCAGTGTATGTACGCATTT
TTCCTACTCATATTGGTCGTTCTTCAAATTGTTATCGCCGTTTTCGCATTTATGTATACA
GGTGAACTTGCGAAAGCTGCAGAAAATGGTTTCAATAAATTATGGGAAAACAGAGACACA
AATAATGAAACAAGAATTGCTATCGAAGGCATACAACGCGGACTTCGCTGTTGTGGTTCA
GCTGGACCCGCTGATTGGGGATTATTAAATATTCCATCTTCATGCTGTGATGATGGAGTT
ATAGCATGCACAGTGTCGAACGCTCATTCAGATGGATGTGCTACACTTCTTTCCAACTTT
GTCAATGATAGTGGACTCTTGATTGCATGGTTTGCAATTGTCTTTGCTGGTATTGAACTT
GTTGGTGTAATCTTCGCCTGTTGTCTGGCCAATTCAATTCGAAATGCAAACAGAAGACAA
TATGCATAAAAGTCTACAATGTACTAATTTAATAGAAATAGGAATTTGAAACCAAATTTT
TTTTGTTTAAAAATCTATTCTTATATATCTCTAATTAATTTTATAGTACAGCTATAGATT
GATGTCAAGAAAATAAGTTTTTTTTTCACTTATTTATCGCTATTAATTGATAAGTAAGTT
GAATACATATGTGTGTGTGTCACCATTTCTTTGGTCTATCATCTATATCAATTCTAATTT
ATCAATCTTAAGTTTCTGTGTGAGCTAGGCACGGCAGATAAGGGTCACTTCTATATATGC
AAGAGAAAAGAAAACACGCCAACAAGAAATATTTTATTTTTATTTTAGTCTTTTAAAATA
TGTTATCGTAAAAATTGTATATTTTTTATTCTTTAAATGTTGTACTTTGAACACAAGTTG
TTAATAAACAAAGTAAAAGTGATTAGTTCTTGAATAAATGCTTTAAATATCAACAATTCA
AAATTTAATGGTAAATAATAATTT

>g8185.t21 Gene=g8185 Length=222
MGLTCGASVVKYGIFIFNLLSLIVVGAIPLFKLDDIRDAFPENNPATVPIIIVVLGSIIF
IISFFGCCGAIRENQCMYAFFLLILVVLQIVIAVFAFMYTGELAKAAENGFNKLWENRDT
NNETRIAIEGIQRGLRCCGSAGPADWGLLNIPSSCCDDGVIACTVSNAHSDGCATLLSNF
VNDSGLLIAWFAIVFAGIELVGVIFACCLANSIRNANRRQYA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g8185.t21 CDD cd03127 tetraspanin_LEL 97 183 2.29559E-18
8 g8185.t21 Gene3D G3DSA:1.10.1450.10 Tetraspanin 100 182 8.9E-13
2 g8185.t21 PANTHER PTHR19282 TETRASPANIN 7 216 3.5E-34
3 g8185.t21 PANTHER PTHR19282:SF471 CD63 ANTIGEN 7 216 3.5E-34
18 g8185.t21 PIRSF PIRSF002419 Tetraspanin 1 222 8.6E-41
4 g8185.t21 PRINTS PR00259 Transmembrane four family signature 45 71 7.7E-21
6 g8185.t21 PRINTS PR00259 Transmembrane four family signature 72 100 7.7E-21
5 g8185.t21 PRINTS PR00259 Transmembrane four family signature 187 213 7.7E-21
1 g8185.t21 Pfam PF00335 Tetraspanin family 10 211 4.3E-37
10 g8185.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
16 g8185.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 30 -
13 g8185.t21 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 31 49 -
17 g8185.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 50 71 -
9 g8185.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 72 77 -
14 g8185.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 78 99 -
12 g8185.t21 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 100 186 -
15 g8185.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 187 210 -
11 g8185.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 211 222 -
7 g8185.t21 SUPERFAMILY SSF48652 Tetraspanin 97 183 1.83E-15
22 g8185.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
23 g8185.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 46 65 -
21 g8185.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 78 100 -
20 g8185.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 187 209 -

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