General information for g2751.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as CCR4-NOT transcription complex subunit 10.
Parent gene
- The parent gene g2751 is located on chr_3: 19983608..19985953 (+ 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_3 | g2751 | g2751.t1 | TSS | g2751.t1 | 19981506 | 19981506 |
| chr_3 | g2751 | g2751.t1 | isoform | g2751.t1 | 19981630 | 19983608 |
| chr_3 | g2751 | g2751.t1 | exon | g2751.t1.exon1 | 19981630 | 19981632 |
| chr_3 | g2751 | g2751.t1 | cds | g2751.t1.CDS1 | 19981630 | 19981632 |
| chr_3 | g2751 | g2751.t1 | exon | g2751.t1.exon2 | 19981690 | 19982557 |
| chr_3 | g2751 | g2751.t1 | cds | g2751.t1.CDS2 | 19981690 | 19982557 |
| chr_3 | g2751 | g2751.t1 | exon | g2751.t1.exon3 | 19982619 | 19983245 |
| chr_3 | g2751 | g2751.t1 | cds | g2751.t1.CDS3 | 19982619 | 19983245 |
| chr_3 | g2751 | g2751.t1 | exon | g2751.t1.exon4 | 19983304 | 19983608 |
| chr_3 | g2751 | g2751.t1 | cds | g2751.t1.CDS4 | 19983304 | 19983608 |
| chr_3 | g2751 | g2751.t1 | TTS | g2751.t1 | 19983654 | 19983654 |
Sequences
>g2751.t1 Gene=g2751 Length=1803
ATGGATTCGGAATTTTTAGAAGATGATTCCGACAACATTGCAGAAATTAAAGCAGCGCAT
GATCGTGCTGTTAATGAATTTTACAAAAGCGATTTAAAGAAATGTGATCAATTTAAAAAA
GCATTATCTTCGTTAACTGGCTTGAATGATACGCAACCGATTCAAAATGTTGAGATTTCT
TCAATAGAATTATGTCCACTTTATTACAACTATGCTGTTGTTCTTTATCATCAAAAGAAA
CTAAATTCGGCACTAAAAATTATGAATGCTATTCTCCATCATGCTCAAGTTGACAATATG
AGTAATAAATTTTTAGAGAAAGCTGGACTCTTGACTGTATGTATTTTACTTGATACTAAT
CAAGCAAAAAAAGCAGACAACTTGCTTGAAACTCTTCAAAATCGATTAAATCTTAATAAT
GATGATATTTTAATGGTTGAAGAAGATGTACTTGAGTCAGAGCAAAAGAAACAAGAAGAA
TTAGATGAAGATCAGGAAACATTTAGACGTCAGTTCCGTTTAGCTCTCATTCGATCAAAG
TTGAACTCGGGAAAGTTGAATGCAGTTGTTGTTCCACAAGATGAAACTTCAAGTTATGCA
ATTTTAAAAGCCCATCAGTTTTATCTTCTCAACGATTTTCAAATGTCTGCAAAAGAATTA
TCAAAACCATTTAAGAATGAGCCAATTACATTGCAAAATTATGGAGAGGAGCAAAATGTG
TGCGTTGCAAATAATATGGGATTAATTCATTTTAATGTCAAACATTATTCACTTGCTGTG
AGATTTTTCCAACAAGCATTGCAGTTTGACCATAAAGCATTAGAAAATGTCCGTAAAGAA
AATAATAATCAACTCCCATTACATTGCTTAGGTGCGACCAGAAGATCAGAAATTTTATAT
AATCTTGGCATTGCACTTCTTTATCTTCAACGTCCTAAAGATGCATTTGATTGTCTTCTT
GTACCGTTAAATGTATATCATAAGAACCCTCGTCTTTGGCTTAGAGTTGCTGAAAGTTGT
ATAATGGTTCATAGACAACACTTAAAAGAGCAAGAATCACAGAATAAAAACATTGTCAGT
TCTGTCATTGGTAGTGGCATGCATAGAAAATATATTATTACACCATCTCAGCAGAAATAT
ACTCCCGATGAAATACAATCGTCATCTTCTGCAATACCAAGTCCAAACTTGGAGTTTGCT
TCCTTATGTTTAAGAAATGCATTGACTCTTGTTGAACATTGCCGTCAGCTTTTAACAACA
GTTGACGAAGAAGTGACTTGCAATCCTTCAAAACCTCTTACAAAAACATCTATTGAAAAG
TTACAACTTCATATTTTGACAGCATCAAGTTATGTAGCATTATGCTTAGGTGATTACACT
CTTGCTTTGTATCATGCAAGAGAATTGTTAAAAATTGAAAATTTACCAGACACACATAAA
ATGATGGGATTTTTATATGCTGCTGAAAGTTGTATTATGCTGGATCGTGTACCAGAAGCT
ATTGCTTATCTGGATCCAAAAATTTTGATGGAATTAAAAAGCACCGATTTTGAAACTGTA
TCATCACCAGATTGGAATATAAATACATTAGAAGCTGTTAATGCTGTTTATACATATAAT
TTGGCAGTTTCATTAGCAATTTATGGTGATTATGAACTTGCTAAGACTAGAATTGTTCTA
TGTCGTCATCATCCTGTAGTTGCAGTGCAAACTAAAATGCTCGAATTGTATTTAGAGATG
CAATCTGGAAACATTGAAAATTGTAAAAAGAAAATAGCAATCGACACTCCACAATATTTT
TAA
>g2751.t1 Gene=g2751 Length=600
MDSEFLEDDSDNIAEIKAAHDRAVNEFYKSDLKKCDQFKKALSSLTGLNDTQPIQNVEIS
SIELCPLYYNYAVVLYHQKKLNSALKIMNAILHHAQVDNMSNKFLEKAGLLTVCILLDTN
QAKKADNLLETLQNRLNLNNDDILMVEEDVLESEQKKQEELDEDQETFRRQFRLALIRSK
LNSGKLNAVVVPQDETSSYAILKAHQFYLLNDFQMSAKELSKPFKNEPITLQNYGEEQNV
CVANNMGLIHFNVKHYSLAVRFFQQALQFDHKALENVRKENNNQLPLHCLGATRRSEILY
NLGIALLYLQRPKDAFDCLLVPLNVYHKNPRLWLRVAESCIMVHRQHLKEQESQNKNIVS
SVIGSGMHRKYIITPSQQKYTPDEIQSSSSAIPSPNLEFASLCLRNALTLVEHCRQLLTT
VDEEVTCNPSKPLTKTSIEKLQLHILTASSYVALCLGDYTLALYHARELLKIENLPDTHK
MMGFLYAAESCIMLDRVPEAIAYLDPKILMELKSTDFETVSSPDWNINTLEAVNAVYTYN
LAVSLAIYGDYELAKTRIVLCRHHPVVAVQTKMLELYLEMQSGNIENCKKKIAIDTPQYF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g2751.t1 | Coils | Coil | Coil | 122 | 142 | - |
| 4 | g2751.t1 | Coils | Coil | Coil | 144 | 171 | - |
| 1 | g2751.t1 | PANTHER | PTHR12979 | CCR4-NOT TRANSCRIPTION COMPLEX SUBUNIT 10 | 15 | 592 | 1.9E-87 |
| 5 | g2751.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 240 | 273 | 8.142 |
| 2 | g2751.t1 | SUPERFAMILY | SSF48452 | TPR-like | 238 | 342 | 3.21E-10 |
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:0030014 | CCR4-NOT complex | CC |
| GO:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K12607 (CCR4-NOT transcription complex subunit 10)
Pathway
- This transcript belongs to the following pathways
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.
