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_1 g10384 g10384.t2 TTS g10384.t2 9378431 9378431
chr_1 g10384 g10384.t2 isoform g10384.t2 9378545 9379280
chr_1 g10384 g10384.t2 exon g10384.t2.exon1 9378545 9378906
chr_1 g10384 g10384.t2 cds g10384.t2.CDS1 9378545 9378906
chr_1 g10384 g10384.t2 exon g10384.t2.exon2 9378974 9379280
chr_1 g10384 g10384.t2 cds g10384.t2.CDS2 9378974 9379280
chr_1 g10384 g10384.t2 TSS g10384.t2 9379380 9379380

Sequences

>g10384.t2 Gene=g10384 Length=669
ATGTATTCGATCTCAATATTAGAACGTATTAAACTCAATTATTCGATGACCACAATTGGA
GTGATTATTGTTTATACATTTTTCATTCAATTTGTGCCGGAAATTTTATGGCTAACTGTG
CTATTTTTCATCCTTGCTGAATGCTTTAAAGTATCAATAATTCAGAAACTGTATTCACTT
GACACGGCCAATAATACAGATGGAAATTCAAGAAAACGAAGAGGCAATAAAGTAGCTGAA
AGTGCAAAGTTTGGATTGCTGATGATTTTGACAGTTTTCTTCTTTGCTTTTATATGCATT
ATATTGGCACCAGCATTTGAGAATTATGAAAAAACATTGACATTGTCATCCCTACTCACA
AGTCTTACACTTTTTCCAATCTCATTAATTGTTGGTGTCTCAGGAACAATTTCCATTCTA
CTCACGGATTCATTTGAACTCGTTAATGTCACTAGTCAAGCATTTCTTAGACTTCTTAAA
CGAAACGCATATCTAGTCATATTTGGAGCATTTATTGGCAGTGTAGTTTTTCCACTCGAT
TGGGATCGTCCATGGCAAATCTATCCAATTCCAAACATCGTTGGAGCAATCACAGGTCAA
ATGATTGGTGCATTTTACACACTCTTCGAAACAATGGTCAATCATAAACTTGGCAAAAAA
CAACATTAA

>g10384.t2 Gene=g10384 Length=222
MYSISILERIKLNYSMTTIGVIIVYTFFIQFVPEILWLTVLFFILAECFKVSIIQKLYSL
DTANNTDGNSRKRRGNKVAESAKFGLLMILTVFFFAFICIILAPAFENYEKTLTLSSLLT
SLTLFPISLIVGVSGTISILLTDSFELVNVTSQAFLRLLKRNAYLVIFGAFIGSVVFPLD
WDRPWQIYPIPNIVGAITGQMIGAFYTLFETMVNHKLGKKQH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g10384.t2 Pfam PF06699 GPI biosynthesis protein family Pig-F 26 206 2.9E-22
8 g10384.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
15 g10384.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 29 -
12 g10384.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 30 34 -
18 g10384.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 35 53 -
10 g10384.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 54 83 -
17 g10384.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -
14 g10384.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 107 117 -
16 g10384.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 118 141 -
11 g10384.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 142 161 -
19 g10384.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 162 181 -
13 g10384.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 182 186 -
20 g10384.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 187 209 -
9 g10384.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 210 222 -
7 g10384.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
3 g10384.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 35 54 -
4 g10384.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -
2 g10384.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 119 141 -
5 g10384.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 162 181 -
6 g10384.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 187 209 -

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:0006506 GPI anchor biosynthetic process BP
GO:0005789 endoplasmic reticulum 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