General information for g6252.t3
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.t3 | isoform | g6252.t3 | 15618828 | 15620100 |
| chr_2 | g6252 | g6252.t3 | exon | g6252.t3.exon1 | 15618828 | 15618966 |
| chr_2 | g6252 | g6252.t3 | cds | g6252.t3.CDS1 | 15618832 | 15618966 |
| chr_2 | g6252 | g6252.t3 | exon | g6252.t3.exon2 | 15619019 | 15619228 |
| chr_2 | g6252 | g6252.t3 | cds | g6252.t3.CDS2 | 15619019 | 15619228 |
| chr_2 | g6252 | g6252.t3 | exon | g6252.t3.exon3 | 15619288 | 15620100 |
| chr_2 | g6252 | g6252.t3 | cds | g6252.t3.CDS3 | 15619288 | 15620100 |
| chr_2 | g6252 | g6252.t3 | TTS | g6252.t3 | 15620174 | 15620174 |
| chr_2 | g6252 | g6252.t3 | TSS | g6252.t3 | NA | NA |
Sequences
>g6252.t3 Gene=g6252 Length=1162
AAGAATGGCTTCAAGTTTAGCTCCTGAGATTTATGGACATTTAGATGTAAAGAAAGCATT
ACTTCTGTTGCTTATTGGTGGTGTTGATAAGAGTCCTGATGGTATGAAAATCAGAGGAAA
TATCAATATTTTGTTAATGGGTGATCCTGGTGTTGCAAAATCACAACTTTTAGGCTATAT
TAGTCGAATTGCAACACGCTCACAATATACTACTGGTCGTGGTTCAAGTGGTGTTGGTTT
AACTGCTGCTGTTATGAAAGATCCTCATACTGGCGAAATGACACTCGAAGGTGGAGCTTT
AGTTTTGGCTGATCAAGGCGTTTGTTGTATTGATGAGTTTGATAAAATGGCTGAAAATGA
CAGAACATCGATTCATGAAGTTATGGAACAGCAGACAATTTCAATCGCTAAAGCTGGAAT
TATGACAACACTCAATGCTCGTGTTTCAATTTTGGCAGCTGCAAATCCTGCTTATGGTCG
TTATAATACAAAACGTTCAATCGAGCAAAATGTTCAATTACCAGCAGCACTTCTTTCATG
TTTTGATTTATTGTGGCTTATTCAAGACAAGCCAGATAGAGAAAATGATTTGCGTTTGGC
TCATCACATTACATTTGTCCATAGTCACGGGAAACAGCCACCATCTAATGTTGAAGCTCT
TGATATGAATCTCGTTCGTCGTTACATCAATCTGTGTAAAAGAAAAAATCCAACAATCCC
TCAAGATTTGACTGAATACATTGTTAATGCTTATGTCGAGTTGAGACGTGAAGCAAGAAA
TAATCGAGACATGACATTCACATCAGCTCGTAATTTGCTTGGTATTTTGCGTCTTTCAAC
AGCTCTTGCTCGCTTACGTCTTGCTAGTACTGTTGAAAAGAGTGATGTAGCTGAAGCATT
GCGTTTACTTGAAATGTCGAAAGATTCATTAAATCAGAGCACAGATCAACGCACAAATGT
CGTTCAAAATATATCAGATCGTATTTTTGCTATCATTCGTGAATTGGCTGGCAATCAAAA
AACTGTCAAAATTTCAGATGTTATGGATCGCTGCACAACAAAAGGCTATAAACCAGATCA
AGTTGATGTGTGCATTGAAGAATACGAAGAGCTTAATGTTTGGCAAGTTAATCAGACACG
CACAAAAATTACCTTCATTTAA
>g6252.t3 Gene=g6252 Length=385
MASSLAPEIYGHLDVKKALLLLLIGGVDKSPDGMKIRGNINILLMGDPGVAKSQLLGYIS
RIATRSQYTTGRGSSGVGLTAAVMKDPHTGEMTLEGGALVLADQGVCCIDEFDKMAENDR
TSIHEVMEQQTISIAKAGIMTTLNARVSILAAANPAYGRYNTKRSIEQNVQLPAALLSCF
DLLWLIQDKPDRENDLRLAHHITFVHSHGKQPPSNVEALDMNLVRRYINLCKRKNPTIPQ
DLTEYIVNAYVELRREARNNRDMTFTSARNLLGILRLSTALARLRLASTVEKSDVAEALR
LLEMSKDSLNQSTDQRTNVVQNISDRIFAIIRELAGNQKTVKISDVMDRCTTKGYKPDQV
DVCIEEYEELNVWQVNQTRTKITFI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g6252.t3 | CDD | cd17758 | MCM7 | 1 | 305 | 0.0 |
| 11 | g6252.t3 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 311 | 1.5E-123 |
| 3 | g6252.t3 | PANTHER | PTHR11630 | DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER | 2 | 365 | 6.9E-164 |
| 4 | g6252.t3 | PANTHER | PTHR11630:SF26 | DNA REPLICATION LICENSING FACTOR MCM7 | 2 | 365 | 6.9E-164 |
| 9 | g6252.t3 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 37 | 52 | 2.0E-34 |
| 7 | g6252.t3 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 97 | 111 | 2.0E-34 |
| 8 | g6252.t3 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 125 | 138 | 2.0E-34 |
| 5 | g6252.t3 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 149 | 161 | 2.0E-34 |
| 6 | g6252.t3 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 176 | 184 | 2.0E-34 |
| 2 | g6252.t3 | Pfam | PF00493 | MCM P-loop domain | 2 | 205 | 8.3E-97 |
| 1 | g6252.t3 | Pfam | PF17855 | MCM AAA-lid domain | 223 | 305 | 8.1E-22 |
| 13 | g6252.t3 | ProSitePatterns | PS00847 | MCM family signature. | 105 | 113 | - |
| 16 | g6252.t3 | ProSiteProfiles | PS50051 | MCM family domain profile. | 1 | 202 | 91.342 |
| 15 | g6252.t3 | SMART | SM00350 | mcm | 1 | 307 | 2.7E-108 |
| 14 | g6252.t3 | SMART | SM00382 | AAA_5 | 38 | 191 | 1.0E-4 |
| 10 | g6252.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 7 | 304 | 1.13E-38 |
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.
