General information for g8114.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as U2 snRNP-associated SURP motif-containing protein.
Parent gene
- The parent gene g8114 is located on chr_2: 28645774..28647001 (- 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 | g8114 | g8114.t8 | isoform | g8114.t8 | 28645774 | 28647001 |
| chr_2 | g8114 | g8114.t8 | exon | g8114.t8.exon1 | 28645774 | 28646350 |
| chr_2 | g8114 | g8114.t8 | cds | g8114.t8.CDS1 | 28645776 | 28646350 |
| chr_2 | g8114 | g8114.t8 | exon | g8114.t8.exon2 | 28646417 | 28646927 |
| chr_2 | g8114 | g8114.t8 | cds | g8114.t8.CDS2 | 28646417 | 28646927 |
| chr_2 | g8114 | g8114.t8 | exon | g8114.t8.exon3 | 28646996 | 28647001 |
| chr_2 | g8114 | g8114.t8 | cds | g8114.t8.CDS3 | 28646996 | 28647001 |
| chr_2 | g8114 | g8114.t8 | TSS | g8114.t8 | 28647098 | 28647098 |
| chr_2 | g8114 | g8114.t8 | TTS | g8114.t8 | NA | NA |
Sequences
>g8114.t8 Gene=g8114 Length=1094
ATGAGTAAATTATCAAAAAGAGAATTAGAGGAAAAGAGGAGAAGAGAAATTGAAGAAGAA
AATGCAAAAGCTTTTGAGGATTTTTATGAAACATTTCAAAACACATCAAACTCAGCTGCT
TCAAAGGTTTGGATAAAAGCAGGAACATACGATGCTGGTTCAAGAAAAGAAGATACAAAG
GAGAAAGGAAAACTTTATAAGCCGACTCCAAAAGCTGGAACTTCTCATGACGATAACTCT
GCTTCTTCTGCTCAAGAATATGCAAGAATGCTAGCAACGTCAGATTCTCGTAAAGAAATA
ACACCTTTGGGCAAAAAGAAAGCTCAAGAGAAGAAAAAATCTAATTTAGAAATGTTTAAA
GAAGAACTCAAACAAATGCAAGAGGAACGTGAAGAGAGACATAAATATAAACATGCGGCG
AAATCAATGATGCAAATGCAAATTCACAGTGTTTTAGAACATCCTGAACCGATTTATCGT
GAAGTTCAAGAATCACAAGGAAGTTTTGATACAGGGGATCCAACAACTACCAATTTATAT
CTTGGTAATTTAAATCCTAAAATAACTGAGCAACAGTTAATGGAAATATTTGGAAAATAC
GGACCATTAGCAAGTGTTAAAATTATGTGGCCGAGATCTGATGAGGAAAAAGCTCGCGGT
AGAAATTGTGGATTTGTAGCATTTATGGCAAGAAAAGATGCTGAGCGTGCATTAAGGCGG
TTAGCAGGTAAAGATGTTATGGGTTATGAAATGAAACTTGGTTGGGGCAAAAGTGTCCCA
ATTATGACTCATCCGATTTATATTCCACCAAAATTACAAGAATATGCAATGCCACCACAA
AAATCAGGATTACCTTTTAATGCTCAACCACTTGGTGATGTTACAAATATCAATGTAGAT
GAACTTGATTTCAAATCATATTTAGTTGATGAAGAGAAAAAAAAGCAAATAGATGAGATT
TTATCAAAGACTATTGTAAAAGTAGTAATACCCACAGAGCGACCATTGCTCATGTTAATA
CATAGAATGATTGAATTTGTAATTCGAGAAGGACCAATTTTTGAATCTATGATAATGGCA
CGAGAACAAAATAA
>g8114.t8 Gene=g8114 Length=364
MSKLSKRELEEKRRREIEEENAKAFEDFYETFQNTSNSAASKVWIKAGTYDAGSRKEDTK
EKGKLYKPTPKAGTSHDDNSASSAQEYARMLATSDSRKEITPLGKKKAQEKKKSNLEMFK
EELKQMQEEREERHKYKHAAKSMMQMQIHSVLEHPEPIYREVQESQGSFDTGDPTTTNLY
LGNLNPKITEQQLMEIFGKYGPLASVKIMWPRSDEEKARGRNCGFVAFMARKDAERALRR
LAGKDVMGYEMKLGWGKSVPIMTHPIYIPPKLQEYAMPPQKSGLPFNAQPLGDVTNINVD
ELDFKSYLVDEEKKKQIDEILSKTIVKVVIPTERPLLMLIHRMIEFVIREGPIFESMIMA
REQN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g8114.t8 | CDD | cd12223 | RRM_SR140 | 176 | 259 | 1.38552E-56 |
| 8 | g8114.t8 | Coils | Coil | Coil | 7 | 27 | - |
| 7 | g8114.t8 | Coils | Coil | Coil | 106 | 129 | - |
| 12 | g8114.t8 | MobiDBLite | mobidb-lite | consensus disorder prediction | 49 | 84 | - |
| 11 | g8114.t8 | MobiDBLite | mobidb-lite | consensus disorder prediction | 51 | 67 | - |
| 3 | g8114.t8 | PANTHER | PTHR23140 | RNA PROCESSING PROTEIN LD23810P | 5 | 364 | 6.4E-103 |
| 4 | g8114.t8 | PANTHER | PTHR23140:SF0 | U2 SNRNP-ASSOCIATED SURP MOTIF-CONTAINING PROTEIN | 5 | 364 | 6.4E-103 |
| 2 | g8114.t8 | Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 179 | 251 | 1.4E-14 |
| 1 | g8114.t8 | Pfam | PF01805 | Surp module | 338 | 364 | 1.6E-4 |
| 13 | g8114.t8 | ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 177 | 258 | 16.654 |
| 14 | g8114.t8 | ProSiteProfiles | PS50128 | SURP motif repeat profile. | 339 | 364 | 8.891 |
| 10 | g8114.t8 | SMART | SM00360 | rrm1_1 | 178 | 254 | 7.4E-17 |
| 5 | g8114.t8 | SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 165 | 260 | 1.17E-21 |
| 6 | g8114.t8 | SUPERFAMILY | SSF109905 | Surp module (SWAP domain) | 321 | 364 | 4.71E-7 |
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:0006396 | RNA processing | BP |
| GO:0003723 | RNA binding | MF |
| GO:0003676 | nucleic acid 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.
