General information for g6252.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as DNA replication licensing factor Mcm7.
Parent gene
- The parent gene g6252 is located on chr_2: 15619044..15620100 (+ 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 | g6252 | g6252.t4 | isoform | g6252.t4 | 15619044 | 15620100 |
| chr_2 | g6252 | g6252.t4 | exon | g6252.t4.exon1 | 15619044 | 15619228 |
| chr_2 | g6252 | g6252.t4 | cds | g6252.t4.CDS1 | 15619133 | 15619228 |
| chr_2 | g6252 | g6252.t4 | exon | g6252.t4.exon2 | 15619288 | 15620100 |
| chr_2 | g6252 | g6252.t4 | cds | g6252.t4.CDS2 | 15619288 | 15620100 |
| chr_2 | g6252 | g6252.t4 | TTS | g6252.t4 | 15620174 | 15620174 |
| chr_2 | g6252 | g6252.t4 | TSS | g6252.t4 | NA | NA |
Sequences
>g6252.t4 Gene=g6252 Length=998
AACTTTTAGGCTATATTAGTCGAATTGCAACACGCTCACAATATACTACTGGTCGTGGTT
CAAGTGGTGTTGGTTTAACTGCTGCTGTTATGAAAGATCCTCATACTGGCGAAATGACAC
TCGAAGGTGGAGCTTTAGTTTTGGCTGATCAAGGCGTTTGTTGTATTGATGAGTTTGATA
AAATGGCTGAAAATGACAGAACATCGATTCATGAAGTTATGGAACAGCAGACAATTTCAA
TCGCTAAAGCTGGAATTATGACAACACTCAATGCTCGTGTTTCAATTTTGGCAGCTGCAA
ATCCTGCTTATGGTCGTTATAATACAAAACGTTCAATCGAGCAAAATGTTCAATTACCAG
CAGCACTTCTTTCATGTTTTGATTTATTGTGGCTTATTCAAGACAAGCCAGATAGAGAAA
ATGATTTGCGTTTGGCTCATCACATTACATTTGTCCATAGTCACGGGAAACAGCCACCAT
CTAATGTTGAAGCTCTTGATATGAATCTCGTTCGTCGTTACATCAATCTGTGTAAAAGAA
AAAATCCAACAATCCCTCAAGATTTGACTGAATACATTGTTAATGCTTATGTCGAGTTGA
GACGTGAAGCAAGAAATAATCGAGACATGACATTCACATCAGCTCGTAATTTGCTTGGTA
TTTTGCGTCTTTCAACAGCTCTTGCTCGCTTACGTCTTGCTAGTACTGTTGAAAAGAGTG
ATGTAGCTGAAGCATTGCGTTTACTTGAAATGTCGAAAGATTCATTAAATCAGAGCACAG
ATCAACGCACAAATGTCGTTCAAAATATATCAGATCGTATTTTTGCTATCATTCGTGAAT
TGGCTGGCAATCAAAAAACTGTCAAAATTTCAGATGTTATGGATCGCTGCACAACAAAAG
GCTATAAACCAGATCAAGTTGATGTGTGCATTGAAGAATACGAAGAGCTTAATGTTTGGC
AAGTTAATCAGACACGCACAAAAATTACCTTCATTTAA
>g6252.t4 Gene=g6252 Length=302
MKDPHTGEMTLEGGALVLADQGVCCIDEFDKMAENDRTSIHEVMEQQTISIAKAGIMTTL
NARVSILAAANPAYGRYNTKRSIEQNVQLPAALLSCFDLLWLIQDKPDRENDLRLAHHIT
FVHSHGKQPPSNVEALDMNLVRRYINLCKRKNPTIPQDLTEYIVNAYVELRREARNNRDM
TFTSARNLLGILRLSTALARLRLASTVEKSDVAEALRLLEMSKDSLNQSTDQRTNVVQNI
SDRIFAIIRELAGNQKTVKISDVMDRCTTKGYKPDQVDVCIEEYEELNVWQVNQTRTKIT
FI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g6252.t4 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 228 | 3.3E-83 |
| 3 | g6252.t4 | PANTHER | PTHR11630 | DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER | 1 | 282 | 6.7E-111 |
| 4 | g6252.t4 | PANTHER | PTHR11630:SF26 | DNA REPLICATION LICENSING FACTOR MCM7 | 1 | 282 | 6.7E-111 |
| 5 | g6252.t4 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 14 | 28 | 1.6E-24 |
| 8 | g6252.t4 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 42 | 55 | 1.6E-24 |
| 6 | g6252.t4 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 66 | 78 | 1.6E-24 |
| 7 | g6252.t4 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 93 | 101 | 1.6E-24 |
| 2 | g6252.t4 | Pfam | PF00493 | MCM P-loop domain | 1 | 122 | 3.6E-58 |
| 1 | g6252.t4 | Pfam | PF17855 | MCM AAA-lid domain | 140 | 222 | 5.2E-22 |
| 11 | g6252.t4 | ProSitePatterns | PS00847 | MCM family signature. | 22 | 30 | - |
| 13 | g6252.t4 | ProSiteProfiles | PS50051 | MCM family domain profile. | 1 | 119 | 55.516 |
| 12 | g6252.t4 | SMART | SM00350 | mcm | 1 | 224 | 2.8E-23 |
| 9 | g6252.t4 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 5 | 222 | 4.16E-27 |
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:0003677 | DNA binding | MF |
| GO:0005524 | ATP binding | MF |
| GO:0042555 | MCM complex | CC |
| GO:0006260 | DNA replication | BP |
| GO:0006270 | DNA replication initiation | BP |
| GO:0032508 | DNA duplex unwinding | BP |
| GO:0003678 | DNA helicase activity | 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.
