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_3 g4154 g4154.t2 isoform g4154.t2 31016522 31020175
chr_3 g4154 g4154.t2 exon g4154.t2.exon1 31016522 31016608
chr_3 g4154 g4154.t2 exon g4154.t2.exon2 31016683 31016745
chr_3 g4154 g4154.t2 cds g4154.t2.CDS1 31016722 31016745
chr_3 g4154 g4154.t2 exon g4154.t2.exon3 31019481 31020044
chr_3 g4154 g4154.t2 cds g4154.t2.CDS2 31019481 31020044
chr_3 g4154 g4154.t2 exon g4154.t2.exon4 31020098 31020175
chr_3 g4154 g4154.t2 cds g4154.t2.CDS3 31020098 31020175
chr_3 g4154 g4154.t2 TTS g4154.t2 31020285 31020285
chr_3 g4154 g4154.t2 TSS g4154.t2 NA NA

Sequences

>g4154.t2 Gene=g4154 Length=792
TGTGTTGTGTTGTTTGGCGCATAGAGAATTACTTTATTCGAGTTTGGCGTGCAAATTAAT
TGGATAGTTGCACTAAAAATAATAATGATTCAAGAAAATTAGTATTTACTTCTGTACCTA
AAAGAAATGCTTTATTTTGTGAAACATCAAATTTTCGGAATTATTTTTATGTTTCATGGT
GCACTAACGCTCGTCAAAATCGGTGAAATAAGGTCATTTTTGCAAAATAAGCATTTAGAT
GATGCATCACTTGTTCCAACAATTATAATATGTGTAGGAATATTCATTTTTATTATTTCA
TTTCTTGGATGCTGTGGTGCAATGAAACAACAGAGAATATTTCTCGAAACCTATTCGATA
TGTCTCCTTGTACTGGTGATGATGCAAATTTTACTTGCTCTTCTGATTTTTTTATTTTTG
GAAGATATTAATCGTGATAGTTTGAAAAGTTTTACAAAAATGTGGCGTTTAAGATTTATG
CCAGATAACCAAATGATGATTGATATGGTTCAAACTTCAATTGAATGTTGTGGCTCAAAT
AACATGGATGACTATAGTTTTGATCGAATACCACTTTCATGTTGTAAAAAGAATGTAGAT
GCATGCTCAAAAGATATTGCATTTCCATCAGGCTGTAAATTACTCTTAAAAAATGCAATA
AATTCATCGGGACATACAATTTCATACTTATGTATAATTACCGCTATTTTCGAGTTTTTA
GCATCAATGATGGGATTTTTACTAAGTTCGCAGATAAGGAAAAATCATGGAAAAGGACGA
TGTTGTACTTAA

>g4154.t2 Gene=g4154 Length=221
MLYFVKHQIFGIIFMFHGALTLVKIGEIRSFLQNKHLDDASLVPTIIICVGIFIFIISFL
GCCGAMKQQRIFLETYSICLLVLVMMQILLALLIFLFLEDINRDSLKSFTKMWRLRFMPD
NQMMIDMVQTSIECCGSNNMDDYSFDRIPLSCCKKNVDACSKDIAFPSGCKLLLKNAINS
SGHTISYLCIITAIFEFLASMMGFLLSSQIRKNHGKGRCCT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g4154.t2 CDD cd03127 tetraspanin_LEL 99 180 3.85001E-12
8 g4154.t2 Gene3D G3DSA:1.10.1450.10 Tetraspanin 99 170 2.2E-9
2 g4154.t2 PANTHER PTHR19282 TETRASPANIN 13 208 5.3E-23
3 g4154.t2 PANTHER PTHR19282:SF252 TETRASPANIN 13 208 5.3E-23
18 g4154.t2 PIRSF PIRSF002419 Tetraspanin 7 221 1.1E-30
6 g4154.t2 PRINTS PR00259 Transmembrane four family signature 40 66 3.6E-15
4 g4154.t2 PRINTS PR00259 Transmembrane four family signature 67 95 3.6E-15
5 g4154.t2 PRINTS PR00259 Transmembrane four family signature 184 210 3.6E-15
1 g4154.t2 Pfam PF00335 Tetraspanin family 9 207 9.5E-32
10 g4154.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 6 -
14 g4154.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 7 25 -
13 g4154.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 26 44 -
15 g4154.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 45 66 -
11 g4154.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 67 77 -
17 g4154.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 78 98 -
12 g4154.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 99 184 -
16 g4154.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 185 206 -
9 g4154.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 207 221 -
7 g4154.t2 SUPERFAMILY SSF48652 Tetraspanin 97 180 4.18E-11
23 g4154.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 9 31 -
22 g4154.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 41 63 -
21 g4154.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 76 98 -
20 g4154.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 184 206 -

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