General information for g11264.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Retinoblastoma-binding protein 5-like protein.
Parent gene
- The parent gene g11264 is located on chr_1: 15159937..15160435 (- 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 | g11264 | g11264.t4 | TTS | g11264.t4 | 15158245 | 15158245 |
| chr_1 | g11264 | g11264.t4 | isoform | g11264.t4 | 15158406 | 15159853 |
| chr_1 | g11264 | g11264.t4 | exon | g11264.t4.exon1 | 15158406 | 15159853 |
| chr_1 | g11264 | g11264.t4 | cds | g11264.t4.CDS1 | 15158406 | 15159491 |
| chr_1 | g11264 | g11264.t4 | TSS | g11264.t4 | 15160029 | 15160029 |
Sequences
>g11264.t4 Gene=g11264 Length=1448
AGTCATTTTGCCAAAACTTTCCTGAAGAATATGATGGTGCACTCGATTGTATTTCGTTAG
CAGTAACTTGCTGCTTTAATAAGTATGGTACGCTTTTAGCTGTAGGCTGTAATGATGGAA
GAATTGTTATTTGGGATTTCTTAACTAGAGGAATTGCAAAAATTATATCAGCCCACGTTC
ATCCAATTTGTTCACTTAGTTGGTCAAGAAATGGACATAAATTGTTATCGGCGTCAACAG
ATAATAACGCTTGTATATGGGACGTTTTAACTGGTGACTGTGAAAATAAATATCGGTTTC
CATCGCCAATTCTAAAAGTGCAATTTCATCCGCGCAATGATTCAAAATTTCTTGTTTGCC
CAATGAGATATGCAGCTATTTTAGTTGAAGTAGGAGGAAAACATCAAGTGCTTCCAATTG
ACAGTGATGGAGATCTTAATATTGTCGCTACATTCGATCGAAGAGGACAACATATTTTTA
CAGGAAATGCAAAAGGAAAAATTCTAGTTCTTGACACTGAAACTCTGAAAATTGTTGCAA
GTTTTAAAATTACTGTGGGAACATCAAGTGCGACTGCAGTTAAGAGTATTGAATTTGCTC
GTCGTGGTGATTCATTTCTTGTAAATACAGCTGATCGTGTTATTCGAGTTTATGATTCAA
AAGAAGTGCTGACATGTAAAGGTGATCCAGAGCCAATTCAGAAATTACAAGATCTTGTGA
ATAAAACGACATGGAAAAAGTGTTGTTTCTCAGGTGATGGTGAATATATATGTGCTGGTT
CAGCAAGACAACATGCACTTTATATTTGGGAAAAATCTGTTGGAAATCTTGTAAAAATTC
TTCATGGAACAAAAGGTGAATTGCTTTTAGACGTTATATGGCATCCTGTAAGACCAATTA
TTGCAAGTATAAGTTCTGGATTGGTCTCAATATGGGCCCAAAATCAAGTTGAAAATTGGT
CAGCTTTTGCTCCTGATTTCAAAGAATTGGATGAAAATGTTGAATATGAAGAAAGAGAGT
CTGAATTTGATATTGCAGATGAAGACAAATCGGTTGACCTTGCAGCAGAAAATAAAACAG
AAGAGGATCTTGAAGTTGACATTGTAACAACAGAGCCAATTGCTGCATTTTGTAGTTCAG
ATGAAGAAACAGAAGACAATAATGCACTACAATTTCTTCCAATCGCTCCTGAGGTGGAGG
ATCCTGAAGACGGATGGGCTAATCAAGAAGCAGATGCCTTAGCTGAACAAGAACAATTGT
CAAATTCACGAGATTTTAATGATTCTTTGGATGGAGGTGGAAGTGCAAAGAAAAGAAAAA
TTTCCTCATACGACATTGAACTTGAAAATGCACCACCAGCTGATGAAACACATCCATTAC
TTCAAAATAAAACAATGAAAGAGAAACAAAACACAAATAACAAATCAAAAGGACGACCGA
GAAAATAG
>g11264.t4 Gene=g11264 Length=361
MRYAAILVEVGGKHQVLPIDSDGDLNIVATFDRRGQHIFTGNAKGKILVLDTETLKIVAS
FKITVGTSSATAVKSIEFARRGDSFLVNTADRVIRVYDSKEVLTCKGDPEPIQKLQDLVN
KTTWKKCCFSGDGEYICAGSARQHALYIWEKSVGNLVKILHGTKGELLLDVIWHPVRPII
ASISSGLVSIWAQNQVENWSAFAPDFKELDENVEYEERESEFDIADEDKSVDLAAENKTE
EDLEVDIVTTEPIAAFCSSDEETEDNNALQFLPIAPEVEDPEDGWANQEADALAEQEQLS
NSRDFNDSLDGGGSAKKRKISSYDIELENAPPADETHPLLQNKTMKEKQNTNNKSKGRPR
K
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g11264.t4 | Gene3D | G3DSA:2.130.10.10 | - | 12 | 195 | 4.4E-20 |
| 6 | g11264.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 292 | 361 | - |
| 7 | g11264.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 293 | 308 | - |
| 8 | g11264.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 310 | 324 | - |
| 1 | g11264.t4 | PANTHER | PTHR44040 | RETINOBLASTOMA-BINDING PROTEIN 5 | 26 | 350 | 7.8E-103 |
| 4 | g11264.t4 | SMART | SM00320 | WD40_4 | 54 | 98 | 4.0 |
| 5 | g11264.t4 | SMART | SM00320 | WD40_4 | 108 | 150 | 30.0 |
| 3 | g11264.t4 | SMART | SM00320 | WD40_4 | 153 | 192 | 14.0 |
| 2 | g11264.t4 | SUPERFAMILY | SSF50998 | Quinoprotein alcohol dehydrogenase-like | 28 | 192 | 1.41E-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:0048188 | Set1C/COMPASS complex | CC |
| 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.
