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 g5051 g5051.t3 isoform g5051.t3 6618900 6620140
chr_2 g5051 g5051.t3 exon g5051.t3.exon1 6618900 6620140
chr_2 g5051 g5051.t3 TTS g5051.t3 6618905 6618905
chr_2 g5051 g5051.t3 cds g5051.t3.CDS1 6619177 6619890
chr_2 g5051 g5051.t3 TSS g5051.t3 6621056 6621056

Sequences

>g5051.t3 Gene=g5051 Length=1241
GGATGTAGGAGTAGGTCTATTCGTATTTTCGAATGGGATTGTTGTGAAGCATTCAGCAGC
TGCATTTTCAAAAAAGAAATTTCAAAAACTTCTTGTTTCATGTCTACCACTCTTTATTCT
CGGCTTTTCAAGGCTGGTCCTTACAAAAGAAATCAATTATCAAGAGCATGTCACTGAATA
TGGAGTACATTGGAATTTTTTCATCACACTTGCAGTGACAAAAATCTTTGGAACAGTATT
GGAAGGTTTTATGAAAACAGCCGAACATATAAAGTATTCTGCACTAATGTTACTTATGTT
TCACGAAACTTGTTTACAATTGGGCTTATCAAATTATATAATGGATGATAATGTAGCACG
CAATAATTTAATAGCTGCAAATCGTGAAGGAATTTTCTCGACAACTGGTTATGTTTCACT
TTATTTGGCGTCAATATATATTGGCACGCTATTGAAATCAGATGGACAAGAGCTGTTGAA
AGTGCGAGAAGTTTTTCATAAAGCTGTAAAATTGGGACTGACTTCAGCTTTTTGCTGGAA
AATGATTTATGTGTGTAATGGAATGTTTGGAGTGTCAAGACGAAGTGCAAATATGGGTTA
TAATTTCTGGGTCCTTGCAGTCGGAACATCTATGATGTTTTTGTTTATGTTAATAGAAAT
GTTTATATATTATATAAATTTTAATCGACCACAATGGCAACAAGTGGAACCAAACACAAA
AGCGCAATTGAATGAGCCAGAATTTCATGTTCCTTATGTTCCGCTTATTTTACAAGCAAT
CAACTATAATGGACTTGCATTTTTCCTCATCGCCAATCTATTTACGGGAATTGTGAATGT
TTGCTTTCAAACGATGCTTTTAAGCACATCAGCAAGCATTCTCATCATCACTTATTATAC
ATTCTTGCTAAATGTTATTATGGTATTTTTATTCGTTAACAAGTTCAAACTGAAAATATG
GTAAGAAAAAAATATTTACTTTTACTAATGCATACATGCAAACAAATACACTCAAAATTA
ATTATTTAATTTAATTCTCACTCTCGAGAGAAGATGATGATGATGCTTTTTGATGCAACA
GCACTCATTCAGAAGTCATAACGGAACACTTTTTTTACACATTCAATCATTAACTCACTC
TCTCTCTCGCATTGCGGAAGGCCGATGAAAAAGATGATAATGTTGAAATTATGGACAAAT
AAATTTATTTTTTATTTTTTTAAATGTAACAAAAATCATAT

>g5051.t3 Gene=g5051 Length=237
MKTAEHIKYSALMLLMFHETCLQLGLSNYIMDDNVARNNLIAANREGIFSTTGYVSLYLA
SIYIGTLLKSDGQELLKVREVFHKAVKLGLTSAFCWKMIYVCNGMFGVSRRSANMGYNFW
VLAVGTSMMFLFMLIEMFIYYINFNRPQWQQVEPNTKAQLNEPEFHVPYVPLILQAINYN
GLAFFLIANLFTGIVNVCFQTMLLSTSASILIITYYTFLLNVIMVFLFVNKFKLKIW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g5051.t3 PANTHER PTHR20661 PHOSPHATIDYLINOSITOL-GLYCAN BIOSYNTHESIS CLASS W PROTEIN 10 235 1.6E-43
1 g5051.t3 Pfam PF06423 GWT1 43 196 2.5E-34
9 g5051.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
21 g5051.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
15 g5051.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 32 50 -
20 g5051.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 51 68 -
10 g5051.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 69 87 -
18 g5051.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 88 107 -
13 g5051.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 108 118 -
19 g5051.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 119 142 -
12 g5051.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 143 181 -
16 g5051.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 182 202 -
14 g5051.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 203 207 -
17 g5051.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 208 229 -
11 g5051.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 230 237 -
8 g5051.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 9 31 -
6 g5051.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 46 68 -
7 g5051.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 88 110 -
5 g5051.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 120 142 -
4 g5051.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 182 204 -
3 g5051.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 208 230 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5051/g5051.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5051.t3.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0006506 GPI anchor biosynthetic process BP
GO:0016746 acyltransferase activity MF
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.

Raw TPM values