General information for g7060.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Origin recognition complex subunit 4.
Parent gene
- The parent gene g7060 is located on chr_2: 20917340..20918868 (+ 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_2 | g7060 | g7060.t1 | TSS | g7060.t1 | 20917326 | 20917326 |
| chr_2 | g7060 | g7060.t1 | isoform | g7060.t1 | 20917340 | 20918868 |
| chr_2 | g7060 | g7060.t1 | exon | g7060.t1.exon1 | 20917340 | 20917513 |
| chr_2 | g7060 | g7060.t1 | cds | g7060.t1.CDS1 | 20917340 | 20917513 |
| chr_2 | g7060 | g7060.t1 | exon | g7060.t1.exon2 | 20917570 | 20917780 |
| chr_2 | g7060 | g7060.t1 | cds | g7060.t1.CDS2 | 20917570 | 20917780 |
| chr_2 | g7060 | g7060.t1 | exon | g7060.t1.exon3 | 20917840 | 20918645 |
| chr_2 | g7060 | g7060.t1 | cds | g7060.t1.CDS3 | 20917840 | 20918645 |
| chr_2 | g7060 | g7060.t1 | exon | g7060.t1.exon4 | 20918707 | 20918868 |
| chr_2 | g7060 | g7060.t1 | cds | g7060.t1.CDS4 | 20918707 | 20918868 |
| chr_2 | g7060 | g7060.t1 | TTS | g7060.t1 | 20918979 | 20918979 |
Sequences
>g7060.t1 Gene=g7060 Length=1353
ATGGAAATCGGAAAGACAAGAAAATTTCTTAAATCGCGTTTACAACAAGATACAACAACA
TTTTATGGCTTTGAGAATGAACGTGAACATATAAAAAACTTATTTTTGCGAGCTAAAGAT
GGTGAAAGCAATTCAGCTTTGCTAATTGGACCTAAAAAATGTGGAAAAACAACACTCGTT
AATTCAGTTTTGTTAGAAATGCTGCAAGATAAAAAGTTTGTAGAAAAAACATTATTAATA
TTATTAAATGGCTTAATCCATACTGACGATCGACTCGCATTGAAATCAACCACTATTCAA
ATGAATCTTGAAAAGGAGGTTGAAGGAAAAACTTTTTCATCGTTCTCTGAAAATCTTACT
TTCCTTTTGTCTTGTTTAAAATCTGGTAAAGACACACAAAGATTAATATTCATCATTGAA
GAATTTGATTTATTCTGTGCTCATCATAATCAAACACTTTTATACAATCTTTTTGATGTG
GCACAATCTGCACAAACTCCGATTTGTGTGTTAGGTATTACGCATCGATTGGATGTTATT
GAACTCTTGGAAAAACGAGTTAAATCACGATTTTCACATCGACAAATATTTTTGTTGCCT
AATAGTGATGATTTTGAAACATATTTTAAAATATTTAAAGAACTGTTGAAATTACCAACA
ACACAAGAAAACAATGAGTATATCAAAAATAATTTAAGCATTCCAAAGAATGTGTTTAGA
GAAATTAAACTGCCGTTTTTAAGACGTCTTTTTAATCCAAGTGAATATATGTTTTCAAAG
AAGCATATCACAGATTGGAATAAAGCAATTGATCAATTAGCTAAGAAAGAGAAAGTTATT
AGTACTTTGGAAAATCTTTTTAATACGAGTGTGACCATTGCTACTTTAAAATTATTTCTT
TTTCAAGTAGTATCAAATTTAAATGAGACCCATCAGAAAATTGAAGATAATGAAATGGTT
AAACTGATAGAAAATTTATTGTTTGAAGATAACAAAGTGAAGCTCCTTACTGGTTTATCA
GTTTTAGAATTATGTATTTTGATTGCTATCAAGCATCATTGCGAAATTTATGACAACGAT
CCATTCAACTTTGAAATCATACTCACCAGATATAATAAATTTGCATTAAAATCTTCTACT
ATGCAAAACATCGATCGTGAAGTCATACTAAAAGCTTTTGAGAATCTCAAGTATCAAGAA
TTCATTGGATCAATTGGAATTGAGGGGAAAATTCAAAAAGAATATCAGATGCATAAACTT
CTCATATTTCCAGATCAAATCGAAAAAGCTATTCAACGTTATCAGAATTTGCCAACAGAA
GTGGATCATTGGTCAAAAAGTTCAATATTCTAA
>g7060.t1 Gene=g7060 Length=450
MEIGKTRKFLKSRLQQDTTTFYGFENEREHIKNLFLRAKDGESNSALLIGPKKCGKTTLV
NSVLLEMLQDKKFVEKTLLILLNGLIHTDDRLALKSTTIQMNLEKEVEGKTFSSFSENLT
FLLSCLKSGKDTQRLIFIIEEFDLFCAHHNQTLLYNLFDVAQSAQTPICVLGITHRLDVI
ELLEKRVKSRFSHRQIFLLPNSDDFETYFKIFKELLKLPTTQENNEYIKNNLSIPKNVFR
EIKLPFLRRLFNPSEYMFSKKHITDWNKAIDQLAKKEKVISTLENLFNTSVTIATLKLFL
FQVVSNLNETHQKIEDNEMVKLIENLLFEDNKVKLLTGLSVLELCILIAIKHHCEIYDND
PFNFEIILTRYNKFALKSSTMQNIDREVILKAFENLKYQEFIGSIGIEGKIQKEYQMHKL
LIFPDQIEKAIQRYQNLPTEVDHWSKSSIF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g7060.t1 | Gene3D | G3DSA:3.40.50.300 | - | 23 | 200 | 0.0000 |
| 3 | g7060.t1 | PANTHER | PTHR12087 | ORIGIN RECOGNITION COMPLEX SUBUNIT 4 | 7 | 448 | 0.0000 |
| 7 | g7060.t1 | PIRSF | PIRSF007858 | ORC4 | 2 | 450 | 0.0000 |
| 2 | g7060.t1 | Pfam | PF13191 | AAA ATPase domain | 21 | 170 | 0.0000 |
| 1 | g7060.t1 | Pfam | PF14629 | Origin recognition complex (ORC) subunit 4 C-terminus | 211 | 430 | 0.0000 |
| 5 | g7060.t1 | SMART | SM00382 | AAA_5 | 42 | 201 | 0.0077 |
| 4 | g7060.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 16 | 219 | 0.0000 |
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:0005634 | nucleus | CC |
| GO:0003677 | DNA binding | MF |
| GO:0000808 | origin recognition complex | CC |
| GO:0006260 | DNA replication | BP |
KEGG
Orthology
- This transcript has been annotated with K02606 (origin recognition complex subunit 4)
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.
