General information for g8114.t7
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.t7 | isoform | g8114.t7 | 28645774 | 28647001 |
| chr_2 | g8114 | g8114.t7 | exon | g8114.t7.exon1 | 28645774 | 28646350 |
| chr_2 | g8114 | g8114.t7 | cds | g8114.t7.CDS1 | 28645776 | 28646350 |
| chr_2 | g8114 | g8114.t7 | exon | g8114.t7.exon2 | 28646417 | 28646572 |
| chr_2 | g8114 | g8114.t7 | cds | g8114.t7.CDS2 | 28646417 | 28646572 |
| chr_2 | g8114 | g8114.t7 | exon | g8114.t7.exon3 | 28646645 | 28646927 |
| chr_2 | g8114 | g8114.t7 | cds | g8114.t7.CDS3 | 28646645 | 28646927 |
| chr_2 | g8114 | g8114.t7 | exon | g8114.t7.exon4 | 28646996 | 28647001 |
| chr_2 | g8114 | g8114.t7 | cds | g8114.t7.CDS4 | 28646996 | 28647001 |
| chr_2 | g8114 | g8114.t7 | TSS | g8114.t7 | 28647098 | 28647098 |
| chr_2 | g8114 | g8114.t7 | TTS | g8114.t7 | NA | NA |
Sequences
>g8114.t7 Gene=g8114 Length=1022
ATGAGTAAATTATCAAAAAGAGAATTAGAGGAAAAGAGGAGAAGAGAAATTGAAGAAGAA
AATGCAAAAGCTTTTGAGGATTTTTATGAAACATTTCAAAACACATCAAACTCAGCTGCT
TCAAAGGTTTGGATAAAAGCAGGAACATACGATGCTGGTTCAAGAAAAGAAGATACAAAG
GAGAAAGGAAAACTTTATAAGCCGACTCCAAAAGCTGGAACTTCTCATGACGATAACTCT
GCTTCTTCTGCTCAAGAATATGCAAGAATGCTAGCAACGTCAGATTCTCAAGAACTCAAA
CAAATGCAAGAGGAACGTGAAGAGAGACATAAATATAAACATGCGGCGAAATCAATGATG
CAAATGCAAATTCACAGTGTTTTAGAACATCCTGAACCGATTTATCGTGAAGTTCAAGAA
TCACAAGGAAGTTTTGATACAGGGGATCCAACAACTACCAATTTATATCTTGGTAATTTA
AATCCTAAAATAACTGAGCAACAGTTAATGGAAATATTTGGAAAATACGGACCATTAGCA
AGTGTTAAAATTATGTGGCCGAGATCTGATGAGGAAAAAGCTCGCGGTAGAAATTGTGGA
TTTGTAGCATTTATGGCAAGAAAAGATGCTGAGCGTGCATTAAGGCGGTTAGCAGGTAAA
GATGTTATGGGTTATGAAATGAAACTTGGTTGGGGCAAAAGTGTCCCAATTATGACTCAT
CCGATTTATATTCCACCAAAATTACAAGAATATGCAATGCCACCACAAAAATCAGGATTA
CCTTTTAATGCTCAACCACTTGGTGATGTTACAAATATCAATGTAGATGAACTTGATTTC
AAATCATATTTAGTTGATGAAGAGAAAAAAAAGCAAATAGATGAGATTTTATCAAAGACT
ATTGTAAAAGTAGTAATACCCACAGAGCGACCATTGCTCATGTTAATACATAGAATGATT
GAATTTGTAATTCGAGAAGGACCAATTTTTGAATCTATGATAATGGCACGAGAACAAAAT
AA
>g8114.t7 Gene=g8114 Length=340
MSKLSKRELEEKRRREIEEENAKAFEDFYETFQNTSNSAASKVWIKAGTYDAGSRKEDTK
EKGKLYKPTPKAGTSHDDNSASSAQEYARMLATSDSQELKQMQEEREERHKYKHAAKSMM
QMQIHSVLEHPEPIYREVQESQGSFDTGDPTTTNLYLGNLNPKITEQQLMEIFGKYGPLA
SVKIMWPRSDEEKARGRNCGFVAFMARKDAERALRRLAGKDVMGYEMKLGWGKSVPIMTH
PIYIPPKLQEYAMPPQKSGLPFNAQPLGDVTNINVDELDFKSYLVDEEKKKQIDEILSKT
IVKVVIPTERPLLMLIHRMIEFVIREGPIFESMIMAREQN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g8114.t7 | CDD | cd12223 | RRM_SR140 | 152 | 235 | 3.7348E-57 |
| 7 | g8114.t7 | Coils | Coil | Coil | 7 | 27 | - |
| 10 | g8114.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - |
| 12 | g8114.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 49 | 84 | - |
| 11 | g8114.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 51 | 67 | - |
| 3 | g8114.t7 | PANTHER | PTHR23140 | RNA PROCESSING PROTEIN LD23810P | 5 | 340 | 2.0E-93 |
| 4 | g8114.t7 | PANTHER | PTHR23140:SF0 | U2 SNRNP-ASSOCIATED SURP MOTIF-CONTAINING PROTEIN | 5 | 340 | 2.0E-93 |
| 2 | g8114.t7 | Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 155 | 227 | 1.3E-14 |
| 1 | g8114.t7 | Pfam | PF01805 | Surp module | 314 | 340 | 1.5E-4 |
| 13 | g8114.t7 | ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 153 | 234 | 16.654 |
| 14 | g8114.t7 | ProSiteProfiles | PS50128 | SURP motif repeat profile. | 315 | 340 | 8.891 |
| 9 | g8114.t7 | SMART | SM00360 | rrm1_1 | 154 | 230 | 7.4E-17 |
| 5 | g8114.t7 | SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 141 | 236 | 1.02E-21 |
| 6 | g8114.t7 | SUPERFAMILY | SSF109905 | Surp module (SWAP domain) | 297 | 340 | 4.32E-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. There were no conditions that were differentially expressed