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.t15 isoform g8185.t15 28961709 28963602
chr_2 g8185 g8185.t15 exon g8185.t15.exon1 28961709 28962247
chr_2 g8185 g8185.t15 TTS g8185.t15 28961757 28961757
chr_2 g8185 g8185.t15 cds g8185.t15.CDS1 28962204 28962247
chr_2 g8185 g8185.t15 exon g8185.t15.exon2 28962309 28962702
chr_2 g8185 g8185.t15 cds g8185.t15.CDS2 28962309 28962702
chr_2 g8185 g8185.t15 exon g8185.t15.exon3 28962761 28962939
chr_2 g8185 g8185.t15 cds g8185.t15.CDS3 28962761 28962939
chr_2 g8185 g8185.t15 exon g8185.t15.exon4 28963542 28963602
chr_2 g8185 g8185.t15 cds g8185.t15.CDS4 28963542 28963602
chr_2 g8185 g8185.t15 TSS g8185.t15 28963786 28963786

Sequences

>g8185.t15 Gene=g8185 Length=1173
ATGGGTTTAACTTGTGGAGCATCTGTGGTCAAATATGGCATTTTTATTTTCAACCTTCTT
TCATTGATCGTTGTTGGTGCAATTCCACTATTCAAACTTGATGACATTCGAGATGCCTTT
CCTGAAAACAATCCAGCCACTGTTCCCATCATAATCGTCGTTCTTGGCTCGATAATCTTT
ATCATCAGTTTCTTTGGATGTTGTGGAGCTATTAGAGAAAATCAGTGTATGGTTTCAACG
TACGCATTTTTCCTACTCATATTGGTCGTTCTTCAAATTGTTATCGCCGTTTTCGCATTT
ATGTATACAGGTGAACTTGCGAAAGCTGCAGAAAATGGTTTCAATAAATTATGGGAAAAC
AGAGACACAAATAATGAAACAAGAATTGCTATCGAAGGCATACAACGCGGACTTCGCTGT
TGTGGTTCAGCTGGACCCGCTGATTGGGGATTATTAAATATTCCATCTTCATGCTGTGAT
GATGGAGTTATAGCATGCACAGTGTCGAACGCTCATTCAGATGGATGTGCTACACTTCTT
TCCAACTTTGTCAATGATAGTGGACTCTTGATTGCATGGTTTGCAATTGTCTTTGCTGGT
ATTGAACTTGTTGGTGTAATCTTCGCCTGTTGTCTGGCCAATTCAATTCGAAATGCAAAC
AGAAGACAATATGCATAAAAGTCTACAATGTACTAATTTAATAGAAATAGGAATTTGAAA
CCAAATTTTTTTTGTTTAAAAATCTATTCTTATATATCTCTAATTAATTTTATAGTACAG
CTATAGATTGATGTCAAGAAAATAAGTTTTTTTTTCACTTATTTATCGCTATTAATTGAT
AAGTAAGTTGAATACATATGTGTGTGTGTCACCATTTCTTTGGTCTATCATCTATATCAA
TTCTAATTTATCAATCTTAAGTTTCTGTGTGAGCTAGGCACGGCAGATAAGGGTCACTTC
TATATATGCAAGAGAAAAGAAAACACGCCAACAAGAAATATTTTATTTTTATTTTAGTCT
TTTAAAATATGTTATCGTAAAAATTGTATATTTTTTATTCTTTAAATGTTGTACTTTGAA
CACAAGTTGTTAATAAACAAAGTAAAAGTGATTAGTTCTTGAATAAATGCTTTAAATATC
AACAATTCAAAATTTAATGGTAAATAATAATTT

>g8185.t15 Gene=g8185 Length=225
MGLTCGASVVKYGIFIFNLLSLIVVGAIPLFKLDDIRDAFPENNPATVPIIIVVLGSIIF
IISFFGCCGAIRENQCMVSTYAFFLLILVVLQIVIAVFAFMYTGELAKAAENGFNKLWEN
RDTNNETRIAIEGIQRGLRCCGSAGPADWGLLNIPSSCCDDGVIACTVSNAHSDGCATLL
SNFVNDSGLLIAWFAIVFAGIELVGVIFACCLANSIRNANRRQYA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g8185.t15 CDD cd03127 tetraspanin_LEL 100 186 2.34198E-18
8 g8185.t15 Gene3D G3DSA:1.10.1450.10 Tetraspanin 103 185 9.1E-13
2 g8185.t15 PANTHER PTHR19282 TETRASPANIN 7 219 3.2E-37
3 g8185.t15 PANTHER PTHR19282:SF471 CD63 ANTIGEN 7 219 3.2E-37
18 g8185.t15 PIRSF PIRSF002419 Tetraspanin 1 225 1.6E-43
5 g8185.t15 PRINTS PR00259 Transmembrane four family signature 45 71 2.8E-28
6 g8185.t15 PRINTS PR00259 Transmembrane four family signature 72 100 2.8E-28
4 g8185.t15 PRINTS PR00259 Transmembrane four family signature 190 216 2.8E-28
1 g8185.t15 Pfam PF00335 Tetraspanin family 10 214 8.7E-41
10 g8185.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
15 g8185.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 30 -
13 g8185.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 31 49 -
17 g8185.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 50 71 -
9 g8185.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 72 82 -
14 g8185.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 83 102 -
12 g8185.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 103 189 -
16 g8185.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 190 213 -
11 g8185.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 214 225 -
24 g8185.t15 ProSitePatterns PS00421 Transmembrane 4 family signature. 56 78 -
7 g8185.t15 SUPERFAMILY SSF48652 Tetraspanin 100 186 1.96E-15
23 g8185.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
22 g8185.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 46 68 -
20 g8185.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 81 103 -
21 g8185.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 190 212 -

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

Pathway

  • This transcript belongs to the following pathways

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