General information for g2895.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cell division cycle protein 16-like protein.
Parent gene
- The parent gene g2895 is located on chr_3: 20969046..20969837 (- 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 | g2895 | g2895.t1 | TTS | g2895.t1 | 20967386 | 20967386 |
| chr_3 | g2895 | g2895.t1 | isoform | g2895.t1 | 20967445 | 20969837 |
| chr_3 | g2895 | g2895.t1 | exon | g2895.t1.exon1 | 20967445 | 20968361 |
| chr_3 | g2895 | g2895.t1 | cds | g2895.t1.CDS1 | 20967445 | 20968361 |
| chr_3 | g2895 | g2895.t1 | exon | g2895.t1.exon2 | 20968417 | 20968496 |
| chr_3 | g2895 | g2895.t1 | cds | g2895.t1.CDS2 | 20968417 | 20968496 |
| chr_3 | g2895 | g2895.t1 | exon | g2895.t1.exon3 | 20968553 | 20968989 |
| chr_3 | g2895 | g2895.t1 | cds | g2895.t1.CDS3 | 20968553 | 20968989 |
| chr_3 | g2895 | g2895.t1 | exon | g2895.t1.exon4 | 20969046 | 20969333 |
| chr_3 | g2895 | g2895.t1 | cds | g2895.t1.CDS4 | 20969046 | 20969333 |
| chr_3 | g2895 | g2895.t1 | exon | g2895.t1.exon5 | 20969397 | 20969837 |
| chr_3 | g2895 | g2895.t1 | cds | g2895.t1.CDS5 | 20969397 | 20969837 |
| chr_3 | g2895 | g2895.t1 | TSS | g2895.t1 | 20969893 | 20969893 |
Sequences
>g2895.t1 Gene=g2895 Length=2163
ATGACTACAGATTTAATAATCGAAGAAAGTGACATGAACGAACAGTTCAACAATTTAGAC
CAGCAGTGTACTGATATAGATTGTTACAGGAAATTAGTTAAAAATTTGTTAGATTTGCGA
AGATACAAATCTGCTTTATACTGGTCAGAAAAAGTAGCTGTACTCTCACAAAATTATCCT
AAAGATGTCTATCAAATGGCACAATGCATGTACATGTTAAAAGAATATAACAGAGCAGGT
CATGTTATCAAAAGAAGTGAATTAGAAAAGAAAAATCTGCTATGCTTAACTTTATTAATT
GAATGCCTGTATGCATCAAAAGAATATCAAGAGGCATTGAATTTATTAGATTCTCTTGAT
ATTGAAGATCTTAATACATCACTTCATGAGGAAACAGATATTGATCCTGTGATTAATCAA
ATTAATGATAATACAAAAAATGACCTTCTGGCTTCACTTTATTTATTGAAAGCAAAAATT
CTTGAGGCCGTTGATAAAAGATCGTTGGCTATTGATTGTTATATTCATGCATTACAAAAA
TCCGTTTATATGACCGAAGCGCTTGATGCACTTGTACATCATGAAATATTAATGTCATGG
GAGGAGAAAGATTTAATTCAAAATATAATGCCTACTAAGCAATGCAATGATGCTGATTTG
CATATACTCAAATATTTATATGAACAAAAGCTGAAAAAGTACTATTCATCAACATCAACG
TCACCGCAAATGGGTCATCCAGAAAAGACACCGAACAATGCTCAGCTTTTAAACGCTATA
AATGAAAAAATAAAAGCAAGTGAAACTGTAGAAAATCGTAAATCAATATCGACATCAACT
GCTGTTAAAGGAAGCATAAAGTTATTTTCAACACCCTCCACTCAAACAATTATGTCGCCA
GCTAATAAAATTCTTTATGATCTCAAAAATACATCGGCCTCATCTTTTTCAATTCAGTCG
AGTTTATCAAGATCTATGCTTAATTGTAGTCGCACGGTCAACACTAATAATAAAATTCCA
TCTAGAACAGCAAAAAATTCTGGCGATATAATAACAGCAAAGAATGCATTAAGAATTCTA
GAAAATAGCGTAGATATTTTGATTGCGAATGCAGAGGAATTATTTTACAATTGTGAATAC
AAGAAATGCTTGAAAATTATAGAAGAAATTTTAGATCGAGATCCATATCATAAAAGAACT
TTATTTGTACAAATTGGTTGTCTCATGGAATTAAAAGACTCGAATGCACTCTATTACATG
GCACATAAGTTAGTTGATTTTAATCCAGATGAGCCAATTAGTTGGTATGCGGTAGGCTCA
TATTATATTCTTATAAATAAACCTGAACAAGGAAGACGTTATTTAACAAAAGCAGTTTTG
TTAGATCGATTATTTGGTCCTGCATTTTTGACATATGGACATTCGTTTGCAAAAGAAAAA
GAACACGATCAAGCAATGGCAGCATATTTTAAAGCTATTCAATTAATGCGTGGATGCCAT
TTACCCTTTCTCTATATCGGTGTAGAATGTGGACTTACGAAAAATTATGAAATGGCCGAA
AAGTTCTTTTATCAGGCAATGTCACTTGCTCCATTAGATGTATTTGTACTTCATGAGCTT
GGAGTTATTAAATATGAGTCAGAATTATATGAAGATGCAGAAGAAATTTTTAGAACTACA
TTGAGCATGGTAACTGAAATGTGCAAACAAAAGAATGAATCATTGAGTGATAGATGGGAG
CCACTTTTAAACAATCTTGGACATTGCTGTAGAAAGAATAAAAAATTAACTGAATCTTTG
GATTTTCATATGCGAGCCTTATCATTAAAACCATTGAACTCGCAGACTTACACTTCCATT
GGATTTGTACTCGCATTGATGGGTAGATTAAGTGAAGCTGTGGAAAACTTTCATAAAAGT
TTAGCATTGAAAAGGGATGACGTAATAACGAGTACAATTTTAAAGACAGTGCTCGAAGAT
CTTGTTGAAGATATGGTAGAAATTGAAGGTGGTGATGAAAAAGAAAATCAGCAACAACAG
AAACATGATATCACGGCAAATTTGACTTCATCTGGGGAAACGATAGATTATATCGATGTT
TATCGTCAACTGAAGTTTGATGAACGTGAAGATTCAGCAGATATGAACTTAGAATGTGAT
TGA
>g2895.t1 Gene=g2895 Length=720
MTTDLIIEESDMNEQFNNLDQQCTDIDCYRKLVKNLLDLRRYKSALYWSEKVAVLSQNYP
KDVYQMAQCMYMLKEYNRAGHVIKRSELEKKNLLCLTLLIECLYASKEYQEALNLLDSLD
IEDLNTSLHEETDIDPVINQINDNTKNDLLASLYLLKAKILEAVDKRSLAIDCYIHALQK
SVYMTEALDALVHHEILMSWEEKDLIQNIMPTKQCNDADLHILKYLYEQKLKKYYSSTST
SPQMGHPEKTPNNAQLLNAINEKIKASETVENRKSISTSTAVKGSIKLFSTPSTQTIMSP
ANKILYDLKNTSASSFSIQSSLSRSMLNCSRTVNTNNKIPSRTAKNSGDIITAKNALRIL
ENSVDILIANAEELFYNCEYKKCLKIIEEILDRDPYHKRTLFVQIGCLMELKDSNALYYM
AHKLVDFNPDEPISWYAVGSYYILINKPEQGRRYLTKAVLLDRLFGPAFLTYGHSFAKEK
EHDQAMAAYFKAIQLMRGCHLPFLYIGVECGLTKNYEMAEKFFYQAMSLAPLDVFVLHEL
GVIKYESELYEDAEEIFRTTLSMVTEMCKQKNESLSDRWEPLLNNLGHCCRKNKKLTESL
DFHMRALSLKPLNSQTYTSIGFVLALMGRLSEAVENFHKSLALKRDDVITSTILKTVLED
LVEDMVEIEGGDEKENQQQQKHDITANLTSSGETIDYIDVYRQLKFDEREDSADMNLECD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g2895.t1 | Gene3D | G3DSA:1.25.40.10 | - | 2 | 282 | 0.000 |
| 15 | g2895.t1 | Gene3D | G3DSA:1.25.40.10 | - | 308 | 662 | 0.000 |
| 2 | g2895.t1 | PANTHER | PTHR12558:SF9 | CELL DIVISION CYCLE PROTEIN 16 HOMOLOG | 28 | 664 | 0.000 |
| 3 | g2895.t1 | PANTHER | PTHR12558 | CELL DIVISION CYCLE 16,23,27 | 28 | 664 | 0.000 |
| 1 | g2895.t1 | Pfam | PF12895 | Anaphase-promoting complex, cyclosome, subunit 3 | 40 | 118 | 0.000 |
| 22 | g2895.t1 | ProSiteProfiles | PS50293 | TPR repeat region circular profile. | 364 | 647 | 27.282 |
| 17 | g2895.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 432 | 465 | 5.841 |
| 18 | g2895.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 466 | 499 | 7.080 |
| 16 | g2895.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 500 | 533 | 6.372 |
| 21 | g2895.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 534 | 567 | 6.136 |
| 20 | g2895.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 580 | 613 | 7.316 |
| 19 | g2895.t1 | ProSiteProfiles | PS50005 | TPR repeat profile. | 614 | 647 | 10.089 |
| 7 | g2895.t1 | SMART | SM00028 | tpr_5 | 151 | 184 | 49.000 |
| 9 | g2895.t1 | SMART | SM00028 | tpr_5 | 364 | 397 | 40.000 |
| 10 | g2895.t1 | SMART | SM00028 | tpr_5 | 432 | 465 | 57.000 |
| 11 | g2895.t1 | SMART | SM00028 | tpr_5 | 466 | 499 | 14.000 |
| 6 | g2895.t1 | SMART | SM00028 | tpr_5 | 500 | 533 | 10.000 |
| 12 | g2895.t1 | SMART | SM00028 | tpr_5 | 534 | 567 | 78.000 |
| 13 | g2895.t1 | SMART | SM00028 | tpr_5 | 580 | 613 | 0.061 |
| 8 | g2895.t1 | SMART | SM00028 | tpr_5 | 614 | 647 | 0.010 |
| 5 | g2895.t1 | SUPERFAMILY | SSF48452 | TPR-like | 21 | 116 | 0.000 |
| 4 | g2895.t1 | SUPERFAMILY | SSF48452 | TPR-like | 350 | 646 | 0.000 |
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 transcript has been annotated with K03353 (anaphase-promoting complex subunit 6)
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.
