General information for g9164.t5
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.t5 | isoform | g9164.t5 | 562953 | 565251 |
| chr_1 | g9164 | g9164.t5 | exon | g9164.t5.exon1 | 562953 | 563715 |
| chr_1 | g9164 | g9164.t5 | cds | g9164.t5.CDS1 | 562955 | 563715 |
| chr_1 | g9164 | g9164.t5 | exon | g9164.t5.exon2 | 564122 | 564670 |
| chr_1 | g9164 | g9164.t5 | cds | g9164.t5.CDS2 | 564122 | 564670 |
| chr_1 | g9164 | g9164.t5 | exon | g9164.t5.exon3 | 565054 | 565116 |
| chr_1 | g9164 | g9164.t5 | cds | g9164.t5.CDS3 | 565054 | 565116 |
| chr_1 | g9164 | g9164.t5 | exon | g9164.t5.exon4 | 565197 | 565251 |
| chr_1 | g9164 | g9164.t5 | cds | g9164.t5.CDS4 | 565197 | 565251 |
| chr_1 | g9164 | g9164.t5 | TSS | g9164.t5 | 565365 | 565365 |
| chr_1 | g9164 | g9164.t5 | TTS | g9164.t5 | NA | NA |
Sequences
>g9164.t5 Gene=g9164 Length=1430
ATGAAAGTAATTGAGTTGCGTGCAGAATTGCAGGCACGCGGCTTAGACACAAAAGGTGTA
AAAGCGGCATTAATCGATCGACTAAAGGAAGCATTGGATCTTGAAGAGCAGCAAGCAGGT
GGTGCACCAAGACCAGCAACAACTGTTACTTCAACAGCACCAGACACTCCAAGAACATTA
AGAAGAAGTTCACGATCAAGAACTCGATCGCCTGAACCTGTTGCAAATGCACCGATTGCT
CAAGACACACCATTACCGGCTGTAGCTGAAGAACCAGAAGAACAAAAAGATTCTGAGCAA
GATTTAGAGCAAATTATTGATGAAACAGATACTGATAAACATCAACAACAAGATTATGAT
GAAGATGCATTGCTTGAAGATGAAAATGAAGACAGTGAACAACAACAACAACAATCAGAA
TCACAAGAGCAACAACAACAGTCAGAAACAGCTGATGAACAAATGGACACAACAGAAAAT
ACTGGCGGCAATAATACAGATGGAGGAACAGAGGATGAAAATCGTGGCATTAAAAGACGA
TCTGATTCACCATCGAAAGGCAATTCACCGAAAAAACGTCAACGATTACCACCACCTAAT
ATTGATGACTTTGTAAATGATGAGGATGAACCTGAATTGGATGAAAATAAAATTCAACTT
TCATGGTTCGATTCCGATCTCAATCTAAAAATTGATCGTGAAACATTTTGCTCAGCTGTT
TCACTTTCTGATACAGGCCTCGCTCTTGTTTGGGCAGGAGCGCGTGCAAACTATGGCGCA
ATAAACAATGGCAAATATTTCTATGAAGTTCAATTGCTCGCACAAAATACAAAAATCAGT
TATCCAAATGAACGTAATTTACATGAAATTCGTTGTGGTTGGTCCATGTCAAATTCACCA
CTTCAACTTGGCGAGACTGAGCTTTCATTTGGTCTTGATTCATCAGGTCGTAAATGTTGC
AATGCAGAATTCACTGATTATGGTGTAAAAATTAATGTACTTGATGTTATTGGTGTGCAT
TTAGATTTAAATGATGAAAAATGCACAATTCAATATACAATTAATGGAAAAGATCAAGGA
ATTGCATTTGAATTTGAAAAAAGTGCATTAAATGATCAAGCATTATTTCCACATATTGTT
ACAAAAAATATTGAATATAAAGTCAACTTTGGTCAATGTGAATCATCATTATGGAGTGCA
CGACGTGACGCACATAAGGAAAGTGAAATACAAAGACGTCGTAAAGATTTAGAACGTAAA
AAGAAAGAAGTGGAGCGAAAAAGAGAAGAAAAGTTGAAAAAGCAACAAGAGGCAGCAGCA
GCAGAAGCGGCAAAAGCAGCAGAAAATACAGAAGCAAGTGAAGAAAAGCCAGCTGAAGAG
CAACAACAACAAACTCAAGAACAGCCAGCAGAAGCCCCAGTTGAAGAAGA
>g9164.t5 Gene=g9164 Length=476
MKVIELRAELQARGLDTKGVKAALIDRLKEALDLEEQQAGGAPRPATTVTSTAPDTPRTL
RRSSRSRTRSPEPVANAPIAQDTPLPAVAEEPEEQKDSEQDLEQIIDETDTDKHQQQDYD
EDALLEDENEDSEQQQQQSESQEQQQQSETADEQMDTTENTGGNNTDGGTEDENRGIKRR
SDSPSKGNSPKKRQRLPPPNIDDFVNDEDEPELDENKIQLSWFDSDLNLKIDRETFCSAV
SLSDTGLALVWAGARANYGAINNGKYFYEVQLLAQNTKISYPNERNLHEIRCGWSMSNSP
LQLGETELSFGLDSSGRKCCNAEFTDYGVKINVLDVIGVHLDLNDEKCTIQYTINGKDQG
IAFEFEKSALNDQALFPHIVTKNIEYKVNFGQCESSLWSARRDAHKESEIQRRRKDLERK
KKEVERKREEKLKKQQEAAAAEAAKAAENTEASEEKPAEEQQQQTQEQPAEAPVEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g9164.t5 | CDD | cd12884 | SPRY_hnRNP | 220 | 394 | 5.9894E-76 |
| 8 | g9164.t5 | Coils | Coil | Coil | 125 | 161 | - |
| 9 | g9164.t5 | Coils | Coil | Coil | 407 | 453 | - |
| 6 | g9164.t5 | Gene3D | G3DSA:1.10.720.30 | - | 1 | 47 | 1.1E-12 |
| 7 | g9164.t5 | Gene3D | G3DSA:2.60.120.920 | - | 214 | 439 | 4.1E-43 |
| 17 | g9164.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 35 | 201 | - |
| 16 | g9164.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 43 | 59 | - |
| 13 | g9164.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 135 | 170 | - |
| 15 | g9164.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 171 | 189 | - |
| 14 | g9164.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 401 | 438 | - |
| 18 | g9164.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 401 | 476 | - |
| 3 | g9164.t5 | PANTHER | PTHR12381 | HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN U FAMILY MEMBER | 1 | 403 | 1.8E-85 |
| 1 | g9164.t5 | Pfam | PF02037 | SAP domain | 1 | 32 | 5.7E-12 |
| 2 | g9164.t5 | Pfam | PF00622 | SPRY domain | 265 | 392 | 3.9E-11 |
| 19 | g9164.t5 | ProSiteProfiles | PS50800 | SAP motif profile. | 1 | 32 | 11.984 |
| 20 | g9164.t5 | ProSiteProfiles | PS50188 | B30.2/SPRY domain profile. | 183 | 395 | 9.744 |
| 12 | g9164.t5 | SMART | SM00513 | sap_9 | 1 | 32 | 5.8E-9 |
| 11 | g9164.t5 | SMART | SM00449 | SPRY_3 | 263 | 394 | 1.7E-14 |
| 5 | g9164.t5 | SUPERFAMILY | SSF68906 | SAP domain | 1 | 35 | 1.32E-8 |
| 4 | g9164.t5 | SUPERFAMILY | SSF49899 | Concanavalin A-like lectins/glucanases | 225 | 392 | 7.91E-19 |
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:0005515 | protein 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