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.t1 TTS g1823.t1 13186290 13186290
chr_3 g1823 g1823.t1 isoform g1823.t1 13186521 13187154
chr_3 g1823 g1823.t1 exon g1823.t1.exon1 13186521 13187009
chr_3 g1823 g1823.t1 cds g1823.t1.CDS1 13186521 13187009
chr_3 g1823 g1823.t1 exon g1823.t1.exon2 13187086 13187154
chr_3 g1823 g1823.t1 cds g1823.t1.CDS2 13187086 13187154
chr_3 g1823 g1823.t1 TSS g1823.t1 13187240 13187240

Sequences

>g1823.t1 Gene=g1823 Length=558
ATGAGTTTACTCAAATCATTAGGAGCAGAGAGCCTGTTTGGCGATGTTTCGAGAATGGAT
AAAAGACAGTTTTTCTATCAAGTTTTGAGTTTTGGCATGATTGTATCGTCTGCTTTAATG
ATCTGGAAAGGACTAATGGTTGTGACAGGAAGTGAATCACCGATTGTTGTCGTATTAAGT
GGATCCATGGAGCCAGCATTTCATCGCGGTGATCTTCTCTTTCTCACAAATTATCCAGAT
GAGCCTGTGCGTGTTGGAGAAATTGTAGTTTTTAAAGTCGAGGGTCGAGATATACCTATT
GTGCACAGAGTTATCAAACTACATGAAAAATCGGACGGTTCAGTGAAATTTTTGACTAAA
GGTGATAACAATTCAGTCGATGATAGAGGTCTTTATGCTCCAGGACAACTTTGGCTTACG
AAAAAAGATATTGTAGGAAGAGCGCGAGGTTTTTTACCTTATGTTGGAATGATTACTATC
CTGATGAATGAGTACCCCAACTTTAAATTTGCTATTTTAGGTATTTTAGCAATTTATGTT
CTATTGCACCGAGAATAA

>g1823.t1 Gene=g1823 Length=185
MSLLKSLGAESLFGDVSRMDKRQFFYQVLSFGMIVSSALMIWKGLMVVTGSESPIVVVLS
GSMEPAFHRGDLLFLTNYPDEPVRVGEIVVFKVEGRDIPIVHRVIKLHEKSDGSVKFLTK
GDNNSVDDRGLYAPGQLWLTKKDIVGRARGFLPYVGMITILMNEYPNFKFAILGILAIYV
LLHRE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g1823.t1 CDD cd06530 S26_SPase_I 54 148 8.16651E-22
7 g1823.t1 Gene3D G3DSA:2.10.109.10 Umud Fragment 54 157 4.0E-6
2 g1823.t1 PANTHER PTHR10806:SF28 SIGNAL PEPTIDASE COMPLEX CATALYTIC SUBUNIT SEC11A 12 185 2.8E-92
3 g1823.t1 PANTHER PTHR10806 SIGNAL PEPTIDASE COMPLEX CATALYTIC SUBUNIT SEC11 12 185 2.8E-92
4 g1823.t1 PRINTS PR00728 Eukaryotic signal peptidase (S26B) family signature 58 73 4.1E-12
5 g1823.t1 PRINTS PR00728 Eukaryotic signal peptidase (S26B) family signature 117 128 4.1E-12
1 g1823.t1 Pfam PF00717 Peptidase S24-like 41 133 1.4E-8
9 g1823.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 23 -
11 g1823.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 24 42 -
10 g1823.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 43 164 -
12 g1823.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 165 182 -
8 g1823.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 183 185 -
17 g1823.t1 ProSitePatterns PS00501 Signal peptidases I serine active site. 60 67 -
16 g1823.t1 ProSitePatterns PS00761 Signal peptidases I signature 3. 117 130 -
6 g1823.t1 SUPERFAMILY SSF51306 LexA/Signal peptidase 55 156 2.09E-11
18 g1823.t1 TIGRFAM TIGR02228 sigpep_I_arch: signal peptidase I 27 180 1.1E-30
15 g1823.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 28 50 -
14 g1823.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 160 182 -

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

Pathway

  • This transcript belongs to the following pathways

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