Gene loci information

Transcript annotation

  • This transcript has been annotated as Selenium-binding protein 2.

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 g8368 g8368.t13 TTS g8368.t13 30045412 30045412
chr_2 g8368 g8368.t13 isoform g8368.t13 30045539 30047402
chr_2 g8368 g8368.t13 exon g8368.t13.exon1 30045539 30046233
chr_2 g8368 g8368.t13 cds g8368.t13.CDS1 30045539 30046051
chr_2 g8368 g8368.t13 exon g8368.t13.exon2 30046446 30046869
chr_2 g8368 g8368.t13 exon g8368.t13.exon3 30046994 30047318
chr_2 g8368 g8368.t13 exon g8368.t13.exon4 30047390 30047402
chr_2 g8368 g8368.t13 TSS g8368.t13 30047454 30047454

Sequences

>g8368.t13 Gene=g8368 Length=1457
ATGGCTTGCAAAGAAGGAAATAAATGTGGAAAGGGACCAGGTTATCCCTCGCCAATGTGG
GCATTTAAAAATGGTCCTCGCGAGAAAATATTGTACGTTGCTACAGTTCAGCCTAATTTA
GAAGATGAGAGTGGAGATTATCTTAGTGTTGTTGACGTTGATCCTCAAAGCGAGACTTTT
TGTCAGGTAATTCATCGTGCGTATTCTGGAAATAAAGGCCAAGAATTTCACCACATAGGC
TGGAATACGTGCTCATCATGTCATTTTGTTGATGCCGCATGCACGGATATTCCCAGTAGA
GATAAACTCGTGTTGCCATGTTTGATATCTGATGCAGTTTATGTCTTCGATGTTGGACAC
GATCCAAAGCGTCCAACACTACATAAAATCATCGATGGTGAAGTTCTACGTAATAATGAT
GTTAGTGCGCCGCATACCGCACATTGTCTTCCTTCTGGCAATGTTATGATTTCTACAATG
GGCGATAAGGACGCGAATGCTAAGGGCGATTTTATTTTGTTTGATAAAAACTTTGATTGT
GTGGGAACTTGGACAGTAGGCGAGAAAGCACTTTGCGGCTACGATTATTGGTATCAGCCT
TACTTTAATGTATTGATTGCAAGTGAATGGGGAGCTCCTCGTCTTTTTAGAAGAGGCTTT
GATGCCGACGATTTGAAATCTGAACGTGACTATGGACGACGACTGAATGTTTACGCTTGG
AATGAAAGAAAATTAATCGATACGATTGATCTAGGAGATGAAGAATCGCCCCACTTGAAA
TTCGTTTCATGCATGATCCCAAAAGATGTGAAGGCTTCGTTGGAGCTTCTCTATGTAGCA
AAGTTTTTCGCTTCTATAAGAAAAACCCTACGGATGAAAAGTTTACTGTAGAAAAAGTTA
TAGATGTGCCAGTAAAAAAAGTTGAAGGATGGATTATGCCCGAAATGAATGGGTTGATGA
CCGATATTCTTCTTTCGTTGGATGATCGCTTCATTTATTTCAGCAATTGGTTTCATGGTG
ATGTCAGACAATATGACATTAGTGATCCAGCAAATCCAAAATTGACTGGTCAAATCTTTC
TTGGTGGCATGCTTCTCAATGACTCGAAAGTAAAAGTACTTGAAGATAAAGAGCTCAAAG
AGCAACCTTCGCCAACATTTATCAAAGGAAGAAGGCTCTATGGTGGACCGCAAATGCTGC
AATTGAGTTTAGATGGTAAAAGACTTTATGTAAGCTCATCTTTGTTTTCACCATGGGATA
AGCAATTTTATCCTGACATGGTAAAGAATGGTGGTACAATTGTACAAATCGATATTGATA
CAGTCAATGGTGGCATGAAATTGAACGAAGAATTCTTAGTTGATTTTGCTAACGAGCCTA
ATGGACCGGCACTTCCTCATGAAATGAGATATCCCGGTGGAGATTGTACTTCTGATATTT
GGCTTGCTGAAGATTAA

>g8368.t13 Gene=g8368 Length=170
MNGLMTDILLSLDDRFIYFSNWFHGDVRQYDISDPANPKLTGQIFLGGMLLNDSKVKVLE
DKELKEQPSPTFIKGRRLYGGPQMLQLSLDGKRLYVSSSLFSPWDKQFYPDMVKNGGTIV
QIDIDTVNGGMKLNEEFLVDFANEPNGPALPHEMRYPGGDCTSDIWLAED

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g8368.t13 PANTHER PTHR23300:SF11 SELENIUM-BINDING PROTEIN 1 1 167 0e+00
3 g8368.t13 PANTHER PTHR23300 METHANETHIOL OXIDASE 1 167 0e+00
1 g8368.t13 Pfam PF05694 56kDa selenium binding protein (SBP56) 1 167 0e+00
4 g8368.t13 SUPERFAMILY SSF50969 YVTN repeat-like/Quinoprotein amine dehydrogenase 6 126 3e-07

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:0008430 selenium binding MF

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