General information for g2837.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Signal recognition particle receptor subunit alpha-like protein.
Parent gene
- The parent gene g2837 is located on chr_3: 20506376..20507239 (+ 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_3 | g2837 | g2837.t7 | isoform | g2837.t7 | 20505590 | 20506376 |
| chr_3 | g2837 | g2837.t7 | exon | g2837.t7.exon1 | 20505590 | 20505606 |
| chr_3 | g2837 | g2837.t7 | cds | g2837.t7.CDS1 | 20505598 | 20505606 |
| chr_3 | g2837 | g2837.t7 | exon | g2837.t7.exon2 | 20505673 | 20506191 |
| chr_3 | g2837 | g2837.t7 | cds | g2837.t7.CDS2 | 20505673 | 20506191 |
| chr_3 | g2837 | g2837.t7 | exon | g2837.t7.exon3 | 20506251 | 20506376 |
| chr_3 | g2837 | g2837.t7 | cds | g2837.t7.CDS3 | 20506251 | 20506376 |
| chr_3 | g2837 | g2837.t7 | TTS | g2837.t7 | 20506475 | 20506475 |
| chr_3 | g2837 | g2837.t7 | TSS | g2837.t7 | NA | NA |
Sequences
>g2837.t7 Gene=g2837 Length=662
CATATGTTATGACATTCTGTGGTGTCAATGGTGTAGGCAAATCAACAAATTTGGCAAAAA
TCTGTTTCTGGTTGATTGAGAATAACTTCAATGTATTGATTGCAGCTTGTGACACTTTTC
GTGCGGGTGCTGTTGAACAGTTGCGCACACATACTCGTCATTTGAATGCACTTCATCCAA
AAGAAAAGCATGGAGGTCGTGAGATGGTTGAGTTATATGAAAAAGGATATGGCAAAGATG
CAGCAGGAATAGCAATGGAAGCGATTCGTTATGCTAAAGAAGCAGGAATTGATGTTGTTC
TTGTTGATACTGCTGGTCGAATGCAAGACAATGAACCTTTGATGCGCGCACTTGCTAAAC
TGATCAAAATTAATGAGCCTGATTTGGTATTATTCGTTGGTGAGGCTCTTGTTGGAAATG
AAGCTGTCGATCAATTGGTGAAATTTAATCAAGCTCTTGCTGATCATTCTTCAATGGAAA
ATCCTCATGTTATTGATGGAATCGTTTTAACTAAATTTGACACTATTGATGATAAGGTTG
GTGCCGCAATTTCAATGACATACATCACAGGTCAACCAATTGTTTTCGTTGGTACTGGTC
AAACGTATACCGATTTAAAGGCTTTAAATGCACGTGCCGTTGTTCATGCACTCATGAAAT
AA
>g2837.t7 Gene=g2837 Length=217
MTFCGVNGVGKSTNLAKICFWLIENNFNVLIAACDTFRAGAVEQLRTHTRHLNALHPKEK
HGGREMVELYEKGYGKDAAGIAMEAIRYAKEAGIDVVLVDTAGRMQDNEPLMRALAKLIK
INEPDLVLFVGEALVGNEAVDQLVKFNQALADHSSMENPHVIDGIVLTKFDTIDDKVGAA
ISMTYITGQPIVFVGTGQTYTDLKALNARAVVHALMK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g2837.t7 | CDD | cd17876 | SRalpha_C | 1 | 215 | 2.23512E-148 |
| 8 | g2837.t7 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 217 | 1.0E-88 |
| 2 | g2837.t7 | PANTHER | PTHR43134:SF1 | SIGNAL RECOGNITION PARTICLE RECEPTOR SUBUNIT ALPHA | 1 | 217 | 4.4E-127 |
| 3 | g2837.t7 | PANTHER | PTHR43134 | SIGNAL RECOGNITION PARTICLE RECEPTOR SUBUNIT ALPHA | 1 | 217 | 4.4E-127 |
| 1 | g2837.t7 | Pfam | PF00448 | SRP54-type protein, GTPase domain | 2 | 216 | 1.1E-48 |
| 7 | g2837.t7 | ProSitePatterns | PS00300 | SRP54-type proteins GTP-binding domain signature. | 190 | 203 | - |
| 5 | g2837.t7 | SMART | SM00382 | AAA_5 | 1 | 150 | 0.0045 |
| 6 | g2837.t7 | SMART | SM00962 | SRP54_3 | 1 | 217 | 6.6E-78 |
| 4 | g2837.t7 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 2 | 216 | 9.82E-41 |
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:0005525 | GTP 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.
