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.t18 isoform g8185.t18 28961709 28963602
chr_2 g8185 g8185.t18 exon g8185.t18.exon1 28961709 28962247
chr_2 g8185 g8185.t18 TTS g8185.t18 28961757 28961757
chr_2 g8185 g8185.t18 cds g8185.t18.CDS1 28962204 28962247
chr_2 g8185 g8185.t18 exon g8185.t18.exon2 28962309 28962665
chr_2 g8185 g8185.t18 cds g8185.t18.CDS2 28962309 28962665
chr_2 g8185 g8185.t18 exon g8185.t18.exon3 28962775 28962952
chr_2 g8185 g8185.t18 cds g8185.t18.CDS3 28962775 28962952
chr_2 g8185 g8185.t18 exon g8185.t18.exon4 28963537 28963602
chr_2 g8185 g8185.t18 cds g8185.t18.CDS4 28963537 28963602
chr_2 g8185 g8185.t18 TSS g8185.t18 28963786 28963786

Sequences

>g8185.t18 Gene=g8185 Length=1140
ATGGGTTTAACTTGTGGAGCATCTGTGGTCAAATATGGCATTTTTATTTTCAACCTTCTT
TGTGCTGTTGCTGGTATAGCATTGATCGTTGTTGGTGCAATTCCACTATTCAAACTTGAT
GACATTCGAGATGCCTTTCCTGAAAACAATCCAGCCACTGTTCCCATCATAATCGTCGTT
CTTGGCTCGATAATCTTTATCATCAGTTTCTTTGGATGTTGTGGAGCTATTAGAGAAAAT
CAGTTTGTTATCGCCGTTTTCGCATTTATGTATACAGGTGAACTTGCGAAAGCTGCAGAA
AATGGTTTCAATAAATTATGGGAAAACAGAGACACAAATAATGAAACAAGAATTGCTATC
GAAGGCATACAACGCGGACTTCGCTGTTGTGGTTCAGCTGGACCCGCTGATTGGGGATTA
TTAAATATTCCATCTTCATGCTGTGATGATGGAGTTATAGCATGCACAGTGTCGAACGCT
CATTCAGATGGATGTGCTACACTTCTTTCCAACTTTGTCAATGATAGTGGACTCTTGATT
GCATGGTTTGCAATTGTCTTTGCTGGTATTGAACTTGTTGGTGTAATCTTCGCCTGTTGT
CTGGCCAATTCAATTCGAAATGCAAACAGAAGACAATATGCATAAAAGTCTACAATGTAC
TAATTTAATAGAAATAGGAATTTGAAACCAAATTTTTTTTGTTTAAAAATCTATTCTTAT
ATATCTCTAATTAATTTTATAGTACAGCTATAGATTGATGTCAAGAAAATAAGTTTTTTT
TTCACTTATTTATCGCTATTAATTGATAAGTAAGTTGAATACATATGTGTGTGTGTCACC
ATTTCTTTGGTCTATCATCTATATCAATTCTAATTTATCAATCTTAAGTTTCTGTGTGAG
CTAGGCACGGCAGATAAGGGTCACTTCTATATATGCAAGAGAAAAGAAAACACGCCAACA
AGAAATATTTTATTTTTATTTTAGTCTTTTAAAATATGTTATCGTAAAAATTGTATATTT
TTTATTCTTTAAATGTTGTACTTTGAACACAAGTTGTTAATAAACAAAGTAAAAGTGATT
AGTTCTTGAATAAATGCTTTAAATATCAACAATTCAAAATTTAATGGTAAATAATAATTT

>g8185.t18 Gene=g8185 Length=214
MGLTCGASVVKYGIFIFNLLCAVAGIALIVVGAIPLFKLDDIRDAFPENNPATVPIIIVV
LGSIIFIISFFGCCGAIRENQFVIAVFAFMYTGELAKAAENGFNKLWENRDTNNETRIAI
EGIQRGLRCCGSAGPADWGLLNIPSSCCDDGVIACTVSNAHSDGCATLLSNFVNDSGLLI
AWFAIVFAGIELVGVIFACCLANSIRNANRRQYA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
20 g8185.t18 CDD cd03127 tetraspanin_LEL 89 175 1.63233E-18
8 g8185.t18 Gene3D G3DSA:1.10.1450.10 Tetraspanin 92 174 8.2E-13
2 g8185.t18 PANTHER PTHR19282 TETRASPANIN 6 208 6.0E-31
3 g8185.t18 PANTHER PTHR19282:SF471 CD63 ANTIGEN 6 208 6.0E-31
19 g8185.t18 PIRSF PIRSF002419 Tetraspanin 1 92 2.2E-17
18 g8185.t18 PIRSF PIRSF002419 Tetraspanin 81 214 1.7E-22
6 g8185.t18 PRINTS PR00259 Transmembrane four family signature 12 35 5.5E-21
5 g8185.t18 PRINTS PR00259 Transmembrane four family signature 51 77 5.5E-21
4 g8185.t18 PRINTS PR00259 Transmembrane four family signature 179 205 5.5E-21
1 g8185.t18 Pfam PF00335 Tetraspanin family 10 91 1.5E-17
9 g8185.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
15 g8185.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
13 g8185.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 35 53 -
17 g8185.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 75 -
11 g8185.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 76 81 -
16 g8185.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 82 99 -
12 g8185.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 100 178 -
14 g8185.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 179 202 -
10 g8185.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 203 214 -
25 g8185.t18 ProSitePatterns PS00421 Transmembrane 4 family signature. 62 84 -
7 g8185.t18 SUPERFAMILY SSF48652 Tetraspanin 89 175 1.7E-15
23 g8185.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
21 g8185.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 55 77 -
24 g8185.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 82 99 -
22 g8185.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 179 201 -

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