Gene loci information

Transcript annotation

  • This transcript has been annotated as Signal peptidase complex catalytic subunit SEC11C.

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 g1823 g1823.t6 TTS g1823.t6 13186290 13186290
chr_3 g1823 g1823.t6 isoform g1823.t6 13186521 13187154
chr_3 g1823 g1823.t6 exon g1823.t6.exon1 13186521 13186930
chr_3 g1823 g1823.t6 cds g1823.t6.CDS1 13186521 13186892
chr_3 g1823 g1823.t6 exon g1823.t6.exon2 13187086 13187154
chr_3 g1823 g1823.t6 TSS g1823.t6 13187240 13187240

Sequences

>g1823.t6 Gene=g1823 Length=479
ATGAGTTTACTCAAATCATTAGGAGCAGAGAGCCTGTTTGGCGATGTTTCGAGAATGGAT
AAAAGACAGGAAGTGAATCACCGATTGTTGTCGTATTAAGTGGATCCATGGAGCCAGCAT
TTCATCGCGGTGATCTTCTCTTTCTCACAAATTATCCAGATGAGCCTGTGCGTGTTGGAG
AAATTGTAGTTTTTAAAGTCGAGGGTCGAGATATACCTATTGTGCACAGAGTTATCAAAC
TACATGAAAAATCGGACGGTTCAGTGAAATTTTTGACTAAAGGTGATAACAATTCAGTCG
ATGATAGAGGTCTTTATGCTCCAGGACAACTTTGGCTTACGAAAAAAGATATTGTAGGAA
GAGCGCGAGGTTTTTTACCTTATGTTGGAATGATTACTATCCTGATGAATGAGTACCCCA
ACTTTAAATTTGCTATTTTAGGTATTTTAGCAATTTATGTTCTATTGCACCGAGAATAA

>g1823.t6 Gene=g1823 Length=123
MEPAFHRGDLLFLTNYPDEPVRVGEIVVFKVEGRDIPIVHRVIKLHEKSDGSVKFLTKGD
NNSVDDRGLYAPGQLWLTKKDIVGRARGFLPYVGMITILMNEYPNFKFAILGILAIYVLL
HRE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g1823.t6 CDD cd06530 S26_SPase_I 1 86 1.95181E-17
2 g1823.t6 PANTHER PTHR10806:SF12 SIGNAL PEPTIDASE COMPLEX CATALYTIC SUBUNIT SEC11C 1 123 9.3E-64
3 g1823.t6 PANTHER PTHR10806 SIGNAL PEPTIDASE COMPLEX CATALYTIC SUBUNIT SEC11 1 123 9.3E-64
1 g1823.t6 Pfam PF00717 Peptidase S24-like 1 71 2.3E-5
6 g1823.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 102 -
7 g1823.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 103 120 -
5 g1823.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 121 123 -
10 g1823.t6 ProSitePatterns PS00761 Signal peptidases I signature 3. 55 68 -
4 g1823.t6 SUPERFAMILY SSF51306 LexA/Signal peptidase 1 96 8.11E-8
11 g1823.t6 TIGRFAM TIGR02228 sigpep_I_arch: signal peptidase I 1 118 9.7E-23
9 g1823.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 98 120 -

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:0016020 membrane CC
GO:0004252 serine-type endopeptidase activity MF
GO:0008233 peptidase activity MF
GO:0016021 integral component of membrane CC
GO:0008236 serine-type peptidase activity MF
GO:0006465 signal peptide processing BP
GO:0005787 signal peptidase complex 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