General information for g8611.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Signal recognition particle 19 kDa protein.
Parent gene
- The parent gene g8611 is located on chr_2: 31766492..31766960 (+ 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_2 | g8611 | g8611.t1 | TSS | g8611.t1 | 31766265 | 31766265 |
| chr_2 | g8611 | g8611.t1 | isoform | g8611.t1 | 31766356 | 31766906 |
| chr_2 | g8611 | g8611.t1 | exon | g8611.t1.exon1 | 31766356 | 31766435 |
| chr_2 | g8611 | g8611.t1 | cds | g8611.t1.CDS1 | 31766356 | 31766435 |
| chr_2 | g8611 | g8611.t1 | exon | g8611.t1.exon2 | 31766492 | 31766906 |
| chr_2 | g8611 | g8611.t1 | cds | g8611.t1.CDS2 | 31766492 | 31766906 |
| chr_2 | g8611 | g8611.t1 | TTS | g8611.t1 | 31766977 | 31766977 |
Sequences
>g8611.t1 Gene=g8611 Length=495
ATGGCTCAAGTTCATCAGCATCAACATGCTTATCAGCCTTTACCATTCAATCCAACAATG
AAACATAGTGACAGAGAAAGGTTCATCTGTATTTATCCTGCTTATATTGATGCTAAAAAG
ACAGTGAAAGAAGGTCGAAAGATTCCTAAATCGCTTTGCATTGAAAATCCATCTTATCAA
GAAATCAAAGATGTACTTTCTGTAACTAATTTAAAATGTGAAGTCGAGAACAAAATTTAT
CCAAGAGAACGTAGCAAAGAACTTCTTCATCGCGGTCGTATTCGTCTTCAAATCAAACAT
GAAGATGGAACTCCAATAAATCCCGATTTAGCTACACGCATGCAAGTCTTTAAATATGTT
GCAACAATCATTCCACAACTAAAGACAAGAATTGCGAATCCTAAGGGTGAACCAGTTGTT
GCACAAGCTAGCTCAAGTCAACAGCAAGGTAGTAGCAGTGGTGGTGGTAAGAAAGGCAAA
GGAAAGAAACGATAA
>g8611.t1 Gene=g8611 Length=164
MAQVHQHQHAYQPLPFNPTMKHSDRERFICIYPAYIDAKKTVKEGRKIPKSLCIENPSYQ
EIKDVLSVTNLKCEVENKIYPRERSKELLHRGRIRLQIKHEDGTPINPDLATRMQVFKYV
ATIIPQLKTRIANPKGEPVVAQASSSQQQGSSSGGGKKGKGKKR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8611.t1 | Gene3D | G3DSA:3.30.56.30 | SRP19 | 17 | 136 | 1.2E-40 |
| 5 | g8611.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 134 | 164 | - |
| 4 | g8611.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 139 | 155 | - |
| 2 | g8611.t1 | PANTHER | PTHR17453 | SIGNAL RECOGNITION PARTICLE 19 KD PROTEIN | 17 | 163 | 1.2E-35 |
| 1 | g8611.t1 | Pfam | PF01922 | SRP19 protein | 30 | 126 | 1.6E-25 |
| 3 | g8611.t1 | SUPERFAMILY | SSF69695 | SRP19 | 19 | 130 | 1.57E-35 |
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:0048500 | signal recognition particle | CC |
| GO:0008312 | 7S RNA binding | MF |
KEGG
Orthology
- This transcript has been annotated with K03105 (signal recognition particle subunit SRP19)
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.
