Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Ero1-like protein.

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 g12258 g12258.t13 TTS g12258.t13 22044625 22044625
chr_1 g12258 g12258.t13 isoform g12258.t13 22045415 22046827
chr_1 g12258 g12258.t13 exon g12258.t13.exon1 22045415 22045845
chr_1 g12258 g12258.t13 cds g12258.t13.CDS1 22045812 22045845
chr_1 g12258 g12258.t13 exon g12258.t13.exon2 22045955 22046827
chr_1 g12258 g12258.t13 cds g12258.t13.CDS2 22045955 22046439
chr_1 g12258 g12258.t13 TSS g12258.t13 22047008 22047008

Sequences

>g12258.t13 Gene=g12258 Length=1304
ATGTCGAGAAAATGTTTCATAATTTTCCTTCTACTATTTAATGTTTATCAGATATCACAA
CAATTTTTCCAATCTCCAGAGGATAGCAGCACGCCAGATAAGCAATGTTTTTGTGAGGTG
AGCAATTAATTGTAATCATATCTTTGGGATTTCCTTGCATTCTTATCGCTTATTGCTTTT
AATTCCTCCTACTATTTTTTGCGTACGTGCCTTTTTTCTATTAATCAGTCTGCTTTTTCA
ATTCCATGCATGAAACAGTTGTTTGCTTCAACTATCGCTCGTTTTATTTTTCGTGTTTAA
TTAGAAATATCGACACCACCACATTTAATTTAACATGCATACATGTGGCGTGACTTTGAT
TCTATCTCTTCTCTTTTTCTTTTATCTGATGACAATAACACATCAAATACAGCTAAAAGG
CAACGTAGATGACTGCAGTTGTACAGTAGATACTGTCGATTACTACAACAATGTTAAAAT
ATATCCACGCTTGAAAAGCTTGCTTCAGAGCAATTACTTTCGATTCTACAAAGTAAATCT
TCACAATGAATGTCCATTTTGGAAGGATGTTGATTTTGAATGTGCTATGAAATTTTGTCA
TGTGAAGTCATGTGAAGACAAAGATTTACCACTTGGATTCAAAGGAGCAGCAGAAAGTCC
TCACTCGAAATACATAAAAGAAGCTCAAACAATTGGCTGTCAAGAAGATTACAATAAAGA
ACTTGACTTTCTTAATAAATCAATCAGCGAGAAACAACATCAGGAGCTTAAAAAATGGTC
AGAGCATGATGAAGCAAAGGACAGTTTTTGTGTTTTAGATGACGATCAAGAGAAAGCTGA
ATATGTTGATTTATTACTCAACCCTGAAAGTGAGGTATACTGGTTATCAAGGTCGTTCCG
CTCATAGAATATGGCAAACTATTTACAATGAAAATTGCTTCAAAGTACAACAAAGTTCCA
ATGAACGTTCAACGTATTCTTCAATGATGAAGAAAAATGTATTAGAAGAAACTTGCTTAG
AAGAGAGAGTTTTTTATCGAATGGTTTCTGGTTTACATGCTTCTATCAACATTCATCTAA
GTGCAAACTATTTGCTACCTGAGAAAAATTCACCACTTGCTGCTATCAATTCTCCAAATG
GTAATTGGGGACCAAATTTGAATGAATTTGTGAAACGTTTTAGTCCTGAAACAACCGGTC
CTGAAGGTCAAAAGTGGCTTAGAAATTTATATTTTGCGTACCTTGTTGAGCTTCGTGCAA
TAGCAAAAGTCGCACCGTATTTACGTACTGAAGATTTTTATACT

>g12258.t13 Gene=g12258 Length=172
MTITHQIQLKGNVDDCSCTVDTVDYYNNVKIYPRLKSLLQSNYFRFYKVNLHNECPFWKD
VDFECAMKFCHVKSCEDKDLPLGFKGAAESPHSKYIKEAQTIGCQEDYNKELDFLNKSIS
EKQHQELKKWSEHDEAKDSFCVLDDDQEKAEYVDLLLNPESEVYWLSRSFRS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g12258.t13 Coils Coil Coil 105 125 -
2 g12258.t13 PANTHER PTHR12613:SF1 ERO1-LIKE PROTEIN ALPHA 7 160 2.5E-42
3 g12258.t13 PANTHER PTHR12613 ERO1-RELATED 7 160 2.5E-42
1 g12258.t13 Pfam PF04137 Endoplasmic Reticulum Oxidoreductin 1 (ERO1) 30 161 2.1E-26
4 g12258.t13 SUPERFAMILY SSF110019 ERO1-like 18 161 1.83E-28

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:0005783 endoplasmic reticulum CC
GO:0016671 oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor MF
GO:0003756 protein disulfide isomerase activity MF
GO:0055114 NA NA

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