General information for g11454.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Signal recognition particle subunit SRP68.
Parent gene
- The parent gene g11454 is located on chr_1: 16355484..16357660 (- strand)
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 | g11454 | g11454.t5 | TTS | g11454.t5 | 16353376 | 16353376 |
| chr_1 | g11454 | g11454.t5 | isoform | g11454.t5 | 16353591 | 16355484 |
| chr_1 | g11454 | g11454.t5 | exon | g11454.t5.exon1 | 16353591 | 16355021 |
| chr_1 | g11454 | g11454.t5 | cds | g11454.t5.CDS1 | 16353591 | 16354526 |
| chr_1 | g11454 | g11454.t5 | exon | g11454.t5.exon2 | 16355081 | 16355484 |
| chr_1 | g11454 | g11454.t5 | TSS | g11454.t5 | 16355547 | 16355547 |
Sequences
>g11454.t5 Gene=g11454 Length=1835
ATGGAAACAAGTAAAAATAATCAAAAAGATCAAGAGAATATTGATCCTGCTTCTGAAGCA
CCAAAAATTTATACTTTGGAAGGTAAAATTTAAAACGATAAATAAAATAAATTTAAAAAT
TTGTCAATATTTTTTTTAACAAAATTTTAGTGCTTAGAATGATAAGAGATATGCAGCAAC
AACATGGATTGAGGCATGGTGATTATCAACGCTACCGTGGTTACTGTACTAGAAGAGTTA
AAAGATTGAGAAAGAATCTTAACCTACCACAAGGTGATCGAAAACATTTTAAGAAGAAAG
AAGTTAATATAAATCATCTTGAGAGTAAAAATTCAAATGAAAAATACATTCATATTCCTC
TTATTCTTGCTGAAAGATGCTGGGCTTATGCAATGCAGGTTTGATTAAGACAAGAAGCAA
ATAGCGAGCCTAGAAAAAAGTACCATCTTATATCTAAGCTTAAAAAAGCTTGTGTATATT
CTCGACAATTGCTTTTCCTAGCTAATACTTCATTTTGTGATGCTAGAACAAAGCTCGAAG
CAGAGGCTTATGATTCATGGATACATGGCTCATTCTATTTTGAACTCAATCAGTGGAAGG
AAGCTGCTGAATATTTGAAAAAAACACAAATTGTTTATGAAAACTTGTTAAAGGCATTAC
CAGAGGAAGAGCAAACCATTTATAGAGCAAAAATTGATGAATTAAGTCCAAGTCTTCGTT
ATTGTTCTTATAATATTGGTGAAAATGCATCCGTCAATGATTTATTAGAAATTCAACGTG
TTGGATTGTTGGATAACTTGGGTGCACTTGTTGCACAAACAAGAACTGAACAAACTGATG
CATTTCAAAGCACTGAATGGCGTGGCAGAAAAATTACTGTTCGCCCTCAAAAAGTTCGGA
TGTTCTTATTGAGTGTTCAAGATTTAGATAAGTCAATTGAAAAAGCAAAAGAATTTCAAG
CTAAAATCGATATTATCGAAAACGTTCTACTTGATTGCAAAGATGCTGTGCTGGCATTAA
AGGATGAAATAAGAAACGATCCAAAAAATCGTGTATCAAATCAAGAAGGACAATTATCTG
GAATGCAATTTTTGCTCTCATACATACAGTACATTCGAATGAAATTAACACTTGAACGAA
ATTTATATTTGATTGGACAATTGAAACAAAACAAAGAAGACGATGGTACGACGAAAAAAA
GTCGTCCTCAAGACATTTCAAGATTATATGAGATAATTCTTCAAAATATAAGTGAAATGC
AGCAACTAAATGGTCTTGAAAATGATACAGAGTATCAAAACGAAATAAAAGATTTAGCAA
ATGCTTTTAAAGCATTTAGATGTTACTATATTGCTCTTACACTGGTTAATTTGAAACGTT
GGAAAGAAGCTGTAGCAATGTATGAACGTTCAACAAAATATGCGACACAAGCGATCAAAG
CAAAAGTCCACGAATTCAATTTACAAGCAGATCTTAACGAATTGCTAAAAAACATTGAAG
GAAATAAATTTTCCGCTCATGCTTATAGTGTTTTAGAATCTGATAATCAAGATGAGACAG
TCTTTTATGGTAAAACACAAAAAACTACTAAACCTTTACTCGAGCGTCTCAATCAATACG
TAGAGGATCCAACATTGAATTCAAAAAATCCTAATGTCTACAAATTAACTCCTGAAATGG
AGGCTATTCCATGTAAACCTTTGTTTTTCGATTTGGCTTTAAATTTTATCGAATTTCCAT
CGCTTGATGATAAGAAAGAACAAGTAACGAATAAAAAAGTATCAGGAGTTGGAGGATTGA
TCAAAGGCTTCCTTGGTTTTGGAGATAAAAAATAA
>g11454.t5 Gene=g11454 Length=311
MFLLSVQDLDKSIEKAKEFQAKIDIIENVLLDCKDAVLALKDEIRNDPKNRVSNQEGQLS
GMQFLLSYIQYIRMKLTLERNLYLIGQLKQNKEDDGTTKKSRPQDISRLYEIILQNISEM
QQLNGLENDTEYQNEIKDLANAFKAFRCYYIALTLVNLKRWKEAVAMYERSTKYATQAIK
AKVHEFNLQADLNELLKNIEGNKFSAHAYSVLESDNQDETVFYGKTQKTTKPLLERLNQY
VEDPTLNSKNPNVYKLTPEMEAIPCKPLFFDLALNFIEFPSLDDKKEQVTNKKVSGVGGL
IKGFLGFGDKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g11454.t5 | PANTHER | PTHR12860 | SIGNAL RECOGNITION PARTICLE 68 KDA PROTEIN | 1 | 306 | 0 |
| 1 | g11454.t5 | Pfam | PF16969 | RNA-binding signal recognition particle 68 | 1 | 277 | 0 |
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:0006614 | SRP-dependent cotranslational protein targeting to membrane | BP |
| GO:0005786 | signal recognition particle, endoplasmic reticulum targeting | CC |
| GO:0030942 | endoplasmic reticulum signal peptide binding | MF |
| GO:0005047 | signal recognition particle binding | MF |
| GO:0008312 | 7S RNA 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. There were no conditions that were differentially expressed