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.t24 isoform g8185.t24 28961709 28963602
chr_2 g8185 g8185.t24 exon g8185.t24.exon1 28961709 28962233
chr_2 g8185 g8185.t24 TTS g8185.t24 28961757 28961757
chr_2 g8185 g8185.t24 cds g8185.t24.CDS1 28962181 28962233
chr_2 g8185 g8185.t24 exon g8185.t24.exon2 28962309 28962702
chr_2 g8185 g8185.t24 cds g8185.t24.CDS2 28962309 28962702
chr_2 g8185 g8185.t24 exon g8185.t24.exon3 28962761 28962952
chr_2 g8185 g8185.t24 cds g8185.t24.CDS3 28962761 28962952
chr_2 g8185 g8185.t24 exon g8185.t24.exon4 28963537 28963602
chr_2 g8185 g8185.t24 cds g8185.t24.CDS4 28963537 28963602
chr_2 g8185 g8185.t24 TSS g8185.t24 28963786 28963786

Sequences

>g8185.t24 Gene=g8185 Length=1177
ATGGGTTTAACTTGTGGAGCATCTGTGGTCAAATATGGCATTTTTATTTTCAACCTTCTT
TGTGCTGTTGCTGGTATAGCATTGATCGTTGTTGGTGCAATTCCACTATTCAAACTTGAT
GACATTCGAGATGCCTTTCCTGAAAACAATCCAGCCACTGTTCCCATCATAATCGTCGTT
CTTGGCTCGATAATCTTTATCATCAGTTTCTTTGGATGTTGTGGAGCTATTAGAGAAAAT
CAGTGTATGGTTTCAACGTACGCATTTTTCCTACTCATATTGGTCGTTCTTCAAATTGTT
ATCGCCGTTTTCGCATTTATGTATACAGGTGAACTTGCGAAAGCTGCAGAAAATGGTTTC
AATAAATTATGGGAAAACAGAGACACAAATAATGAAACAAGAATTGCTATCGAAGGCATA
CAACGCGGACTTCGCTGTTGTGGTTCAGCTGGACCCGCTGATTGGGGATTATTAAATATT
CCATCTTCATGCTGTGATGATGGAGTTATAGCATGCACAGTGTCGAACGCTCATTCAGAT
GGATGTGCTACACTTCTTTCCAACTTTGTCAATGATAGTGGACTCTTGATTGCATGGTTT
GCAATTGTCTTTGCTGGTATTGAACTTGTTGGTGTAATCTTCGCCTGTTGTCCGAAATGC
AAACAGAAGACAATATGCATAAAAGTCTACAATGTACTAATTTAATAGAAATAGGAATTT
GAAACCAAATTTTTTTTGTTTAAAAATCTATTCTTATATATCTCTAATTAATTTTATAGT
ACAGCTATAGATTGATGTCAAGAAAATAAGTTTTTTTTTCACTTATTTATCGCTATTAAT
TGATAAGTAAGTTGAATACATATGTGTGTGTGTCACCATTTCTTTGGTCTATCATCTATA
TCAATTCTAATTTATCAATCTTAAGTTTCTGTGTGAGCTAGGCACGGCAGATAAGGGTCA
CTTCTATATATGCAAGAGAAAAGAAAACACGCCAACAAGAAATATTTTATTTTTATTTTA
GTCTTTTAAAATATGTTATCGTAAAAATTGTATATTTTTTATTCTTTAAATGTTGTACTT
TGAACACAAGTTGTTAATAAACAAAGTAAAAGTGATTAGTTCTTGAATAAATGCTTTAAA
TATCAACAATTCAAAATTTAATGGTAAATAATAATTT

>g8185.t24 Gene=g8185 Length=234
MGLTCGASVVKYGIFIFNLLCAVAGIALIVVGAIPLFKLDDIRDAFPENNPATVPIIIVV
LGSIIFIISFFGCCGAIRENQCMVSTYAFFLLILVVLQIVIAVFAFMYTGELAKAAENGF
NKLWENRDTNNETRIAIEGIQRGLRCCGSAGPADWGLLNIPSSCCDDGVIACTVSNAHSD
GCATLLSNFVNDSGLLIAWFAIVFAGIELVGVIFACCPKCKQKTICIKVYNVLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
20 g8185.t24 CDD cd03127 tetraspanin_LEL 106 192 7.71201E-18
9 g8185.t24 Gene3D G3DSA:1.10.1450.10 Tetraspanin 109 191 9.9E-13
2 g8185.t24 PANTHER PTHR19282 TETRASPANIN 6 217 5.0E-38
3 g8185.t24 PANTHER PTHR19282:SF471 CD63 ANTIGEN 6 217 5.0E-38
19 g8185.t24 PIRSF PIRSF002419 Tetraspanin 1 231 7.9E-45
6 g8185.t24 PRINTS PR00259 Transmembrane four family signature 12 35 1.1E-29
5 g8185.t24 PRINTS PR00259 Transmembrane four family signature 51 77 1.1E-29
4 g8185.t24 PRINTS PR00259 Transmembrane four family signature 78 106 1.1E-29
7 g8185.t24 PRINTS PR00259 Transmembrane four family signature 196 222 1.1E-29
1 g8185.t24 Pfam PF00335 Tetraspanin family 10 219 3.8E-44
10 g8185.t24 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
17 g8185.t24 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
14 g8185.t24 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 35 53 -
16 g8185.t24 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 77 -
11 g8185.t24 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 78 88 -
18 g8185.t24 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 89 108 -
13 g8185.t24 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 109 195 -
15 g8185.t24 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 196 217 -
12 g8185.t24 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 218 234 -
25 g8185.t24 ProSitePatterns PS00421 Transmembrane 4 family signature. 62 84 -
8 g8185.t24 SUPERFAMILY SSF48652 Tetraspanin 106 192 2.09E-15
24 g8185.t24 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
22 g8185.t24 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 54 76 -
23 g8185.t24 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 88 110 -
21 g8185.t24 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 195 217 -

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