General information for g9164.t6
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.t6 | isoform | g9164.t6 | 562953 | 565251 |
| chr_1 | g9164 | g9164.t6 | exon | g9164.t6.exon1 | 562953 | 563715 |
| chr_1 | g9164 | g9164.t6 | cds | g9164.t6.CDS1 | 562955 | 563715 |
| chr_1 | g9164 | g9164.t6 | exon | g9164.t6.exon2 | 564122 | 564657 |
| chr_1 | g9164 | g9164.t6 | cds | g9164.t6.CDS2 | 564122 | 564326 |
| chr_1 | g9164 | g9164.t6 | exon | g9164.t6.exon3 | 565045 | 565116 |
| chr_1 | g9164 | g9164.t6 | exon | g9164.t6.exon4 | 565197 | 565251 |
| chr_1 | g9164 | g9164.t6 | TSS | g9164.t6 | 565365 | 565365 |
| chr_1 | g9164 | g9164.t6 | TTS | g9164.t6 | NA | NA |
Sequences
>g9164.t6 Gene=g9164 Length=1426
ATGAAAGTAATTGAGTTGCGTGCAGAATTGCAGGCACGCGGCTTAGACACAAAAGGTGTA
AAAGCGGCATTAATCGATCGACTAAAGGAAGCATTGGATCTTGAAGAGCAGCAAGCAGGT
GAGAAAAACCAGCAACAACTGTTACTTCAACAGCACCAGACACTCCAAGAACATTAAGAA
GAAGTTCACGATCAAGAACTCGATCGCCTGAACCTGTTGCAAATGCACCGATTGCTCAAG
ACACACCATTACCGGCTGTAGCTGAAGAACCAGAAGAACAAAAAGATTCTGAGCAAGATT
TAGAGCAAATTATTGATGAAACAGATACTGATAAACATCAACAACAAGATTATGATGAAG
ATGCATTGCTTGAAGATGAAAATGAAGACAGTGAACAACAACAACAACAATCAGAATCAC
AAGAGCAACAACAACAGTCAGAAACAGCTGATGAACAAATGGACACAACAGAAAATACTG
GCGGCAATAATACAGATGGAGGAACAGAGGATGAAAATCGTGGCATTAAAAGACGATCTG
ATTCACCATCGAAAGGCAATTCACCGAAAAAACGTCAACGATTACCACCACCTAATATTG
ATGACTTTGTAAATGATGAGGATGAACCTGAATTGGATGAAAATAAAATTCAACTTTCAT
GGTTCGATTCCGATCTCAATCTAAAAATTGATCGTGAAACATTTTGCTCAGCTGTTTCAC
TTTCTGATACAGGCCTCGCTCTTGTTTGGGCAGGAGCGCGTGCAAACTATGGCGCAATAA
ACAATGGCAAATATTTCTATGAAGTTCAATTGCTCGCACAAAATACAAAAATCAGTTATC
CAAATGAACGTAATTTACATGAAATTCGTTGTGGTTGGTCCATGTCAAATTCACCACTTC
AACTTGGCGAGACTGAGCTTTCATTTGGTCTTGATTCATCAGGTCGTAAATGTTGCAATG
CAGAATTCACTGATTATGGTGTAAAAATTAATGTACTTGATGTTATTGGTGTGCATTTAG
ATTTAAATGATGAAAAATGCACAATTCAATATACAATTAATGGAAAAGATCAAGGAATTG
CATTTGAATTTGAAAAAAGTGCATTAAATGATCAAGCATTATTTCCACATATTGTTACAA
AAAATATTGAATATAAAGTCAACTTTGGTCAATGTGAATCATCATTATGGAGTGCACGAC
GTGACGCACATAAGGAAAGTGAAATACAAAGACGTCGTAAAGATTTAGAACGTAAAAAGA
AAGAAGTGGAGCGAAAAAGAGAAGAAAAGTTGAAAAAGCAACAAGAGGCAGCAGCAGCAG
AAGCGGCAAAAGCAGCAGAAAATACAGAAGCAAGTGAAGAAAAGCCAGCTGAAGAGCAAC
AACAACAAACTCAAGAACAGCCAGCAGAAGCCCCAGTTGAAGAAGA
>g9164.t6 Gene=g9164 Length=322
MDTTENTGGNNTDGGTEDENRGIKRRSDSPSKGNSPKKRQRLPPPNIDDFVNDEDEPELD
ENKIQLSWFDSDLNLKIDRETFCSAVSLSDTGLALVWAGARANYGAINNGKYFYEVQLLA
QNTKISYPNERNLHEIRCGWSMSNSPLQLGETELSFGLDSSGRKCCNAEFTDYGVKINVL
DVIGVHLDLNDEKCTIQYTINGKDQGIAFEFEKSALNDQALFPHIVTKNIEYKVNFGQCE
SSLWSARRDAHKESEIQRRRKDLERKKKEVERKREEKLKKQQEAAAAEAAKAAENTEASE
EKPAEEQQQQTQEQPAEAPVEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9164.t6 | CDD | cd12884 | SPRY_hnRNP | 66 | 240 | 2.04634E-75 |
| 5 | g9164.t6 | Coils | Coil | Coil | 253 | 299 | - |
| 4 | g9164.t6 | Gene3D | G3DSA:2.60.120.920 | - | 60 | 286 | 1.4E-43 |
| 9 | g9164.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 47 | - |
| 10 | g9164.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 16 | - |
| 8 | g9164.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 17 | 35 | - |
| 11 | g9164.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 247 | 322 | - |
| 12 | g9164.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 247 | 284 | - |
| 2 | g9164.t6 | PANTHER | PTHR12381 | HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN U FAMILY MEMBER | 13 | 247 | 1.6E-63 |
| 1 | g9164.t6 | Pfam | PF00622 | SPRY domain | 111 | 238 | 1.8E-11 |
| 13 | g9164.t6 | ProSiteProfiles | PS50188 | B30.2/SPRY domain profile. | 29 | 241 | 9.744 |
| 7 | g9164.t6 | SMART | SM00449 | SPRY_3 | 109 | 240 | 1.7E-14 |
| 3 | g9164.t6 | SUPERFAMILY | SSF49899 | Concanavalin A-like lectins/glucanases | 71 | 238 | 3.01E-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