General information for g9164.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Heterogeneous nuclear ribonucleoprotein U.
Parent gene
- The parent gene g9164 is located on chr_1: 563369..565251 (- 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 | g9164 | g9164.t7 | TTS | g9164.t7 | 563106 | 563106 |
| chr_1 | g9164 | g9164.t7 | isoform | g9164.t7 | 563369 | 565251 |
| chr_1 | g9164 | g9164.t7 | exon | g9164.t7.exon1 | 563369 | 563715 |
| chr_1 | g9164 | g9164.t7 | cds | g9164.t7.CDS1 | 563369 | 563715 |
| chr_1 | g9164 | g9164.t7 | exon | g9164.t7.exon2 | 564122 | 564652 |
| chr_1 | g9164 | g9164.t7 | cds | g9164.t7.CDS2 | 564122 | 564652 |
| chr_1 | g9164 | g9164.t7 | exon | g9164.t7.exon3 | 565045 | 565116 |
| chr_1 | g9164 | g9164.t7 | cds | g9164.t7.CDS3 | 565045 | 565116 |
| chr_1 | g9164 | g9164.t7 | exon | g9164.t7.exon4 | 565197 | 565251 |
| chr_1 | g9164 | g9164.t7 | cds | g9164.t7.CDS4 | 565197 | 565251 |
| chr_1 | g9164 | g9164.t7 | TSS | g9164.t7 | 565365 | 565365 |
Sequences
>g9164.t7 Gene=g9164 Length=1005
ATGAAAGTAATTGAGTTGCGTGCAGAATTGCAGGCACGCGGCTTAGACACAAAAGGTGTA
AAAGCGGCATTAATCGATCGACTAAAGGAAGCATTGGATCTTGAAGAGCAGCAAGCAGGT
GAGAAAACAACAACTGTTACTTCAACAGCACCAGACACTCCAAGAACATTAAGAAGAAGT
TCACGATCAAGAACTCGATCGCCTGAACCTGTTGCAAATGCACCGATTGCTCAAGACACA
CCATTACCGGCTGTAGCTGAAGAACCAGAAGAACAAAAAGATTCTGAGCAAGATTTAGAG
CAAATTATTGATGAAACAGATACTGATAAACATCAACAACAAGATTATGATGAAGATGCA
TTGCTTGAAGATGAAAATGAAGACAGTGAACAACAACAACAACAATCAGAATCACAAGAG
CAACAACAACAGTCAGAAACAGCTGATGAACAAATGGACACAACAGAAAATACTGGCGGC
AATAATACAGATGGAGGAACAGAGGATGAAAATCGTGGCATTAAAAGACGATCTGATTCA
CCATCGAAAGGCAATTCACCGAAAAAACGTCAACGATTACCACCACCTAATATTGATGAC
TTTGTAAATGATGAGGATGAACCTGAATTGGATGAAAATAAAATTCAACTTTCATGGTTC
GATTCCGATCTCAATCTAAAAATTGATCGTGAAACATTTTGCTCAGCTGTTTCACTTTCT
GATACAGGCCTCGCTCTTGTTTGGGCAGGAGCGCGTGCAAACTATGGCGCAATAAACAAT
GGCAAATATTTCTATGAAGTTCAATTGCTCGCACAAAATACAAAAATCAGTTATCCAAAT
GAACGTAATTTACATGAAATTCGTTGTGGTTGGTCCATGTCAAATTCACCACTTCAACTT
GGCGAGACTGAGCTTTCATTTGGTCTTGATTCATCAGGTCGTAAATGTTGCAATGCAGAA
TTCACTGATTATGGTGTAAAAATTAATGTACTTGATGTTATTGGT
>g9164.t7 Gene=g9164 Length=335
MKVIELRAELQARGLDTKGVKAALIDRLKEALDLEEQQAGEKTTTVTSTAPDTPRTLRRS
SRSRTRSPEPVANAPIAQDTPLPAVAEEPEEQKDSEQDLEQIIDETDTDKHQQQDYDEDA
LLEDENEDSEQQQQQSESQEQQQQSETADEQMDTTENTGGNNTDGGTEDENRGIKRRSDS
PSKGNSPKKRQRLPPPNIDDFVNDEDEPELDENKIQLSWFDSDLNLKIDRETFCSAVSLS
DTGLALVWAGARANYGAINNGKYFYEVQLLAQNTKISYPNERNLHEIRCGWSMSNSPLQL
GETELSFGLDSSGRKCCNAEFTDYGVKINVLDVIG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9164.t7 | Coils | Coil | Coil | 122 | 158 | - |
| 5 | g9164.t7 | Gene3D | G3DSA:1.10.720.30 | - | 1 | 46 | 1.3E-12 |
| 6 | g9164.t7 | Gene3D | G3DSA:2.60.120.920 | - | 211 | 335 | 3.1E-22 |
| 9 | g9164.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 34 | 198 | - |
| 12 | g9164.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 38 | 56 | - |
| 11 | g9164.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 132 | 167 | - |
| 10 | g9164.t7 | MobiDBLite | mobidb-lite | consensus disorder prediction | 168 | 186 | - |
| 2 | g9164.t7 | PANTHER | PTHR12381 | HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN U FAMILY MEMBER | 1 | 335 | 3.1E-58 |
| 1 | g9164.t7 | Pfam | PF02037 | SAP domain | 1 | 32 | 3.6E-12 |
| 13 | g9164.t7 | ProSiteProfiles | PS50800 | SAP motif profile. | 1 | 32 | 11.984 |
| 8 | g9164.t7 | SMART | SM00513 | sap_9 | 1 | 32 | 5.8E-9 |
| 4 | g9164.t7 | SUPERFAMILY | SSF68906 | SAP domain | 1 | 35 | 8.06E-9 |
| 3 | g9164.t7 | SUPERFAMILY | SSF49899 | Concanavalin A-like lectins/glucanases | 222 | 335 | 7.2E-8 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
