General information for g12531.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as DNA replication licensing factor Mcm2.
Parent gene
- The parent gene g12531 is located on chr_1: 24273666..24274364 (- 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_1 | g12531 | g12531.t5 | TTS | g12531.t5 | 24271272 | 24271272 |
| chr_1 | g12531 | g12531.t5 | isoform | g12531.t5 | 24271421 | 24272692 |
| chr_1 | g12531 | g12531.t5 | exon | g12531.t5.exon1 | 24271421 | 24271945 |
| chr_1 | g12531 | g12531.t5 | cds | g12531.t5.CDS1 | 24271421 | 24271945 |
| chr_1 | g12531 | g12531.t5 | exon | g12531.t5.exon2 | 24272010 | 24272414 |
| chr_1 | g12531 | g12531.t5 | cds | g12531.t5.CDS2 | 24272010 | 24272414 |
| chr_1 | g12531 | g12531.t5 | exon | g12531.t5.exon3 | 24272487 | 24272692 |
| chr_1 | g12531 | g12531.t5 | cds | g12531.t5.CDS3 | 24272487 | 24272684 |
| chr_1 | g12531 | g12531.t5 | TSS | g12531.t5 | NA | NA |
Sequences
>g12531.t5 Gene=g12531 Length=1136
ATGCTGGTATGGCAAAATCTCAATTTTTGAAATATGCTGAAAAGATTGCTCCTCGTGCTG
TTTTCACAACTGGTCAAGGTGCTAGTGCAGTAGGTCTGACAGCTTATGTTCGAAGAAATC
CTATTTCCAAAGAATGGACACTTGAAGCGGGTGCATTAGTTTTGGCTGATCAAGGAGTTT
GCTTAATTGATGAATTTGATAAAATGAATGATCAAGATCGTACATCAATTCATGAAGCTA
TGGAACAACAATCAATTAGTATTTCAAAAGCAGGCATTATAACATCTTTACAAGCTCGTT
GTGCAGTTATTGCTGCATCAAATCCTATTGGTGGTCGTTATGATCCGAGTTTGACGTTCT
CTGAAAATGTGAATCTCTCGGAACCAATTTTATCGCGTTTTGACATTTTGTGTGTTGTAA
AAGATGAATTTGACCCTATGCAAGATCAACGTTTAGCTGAATTTGTTGTTAAGTCACACA
TTCGTCATCATCCATCAAACGATGATCAGGAAAACGAAAATATGGAGGACATTAATGAGT
TGGAATTACCACAAGATTTATTAAAGAAATATATTGTTTATGCGAAAGAGAACGTTAGAC
CCAAATTATCGAATATGGACCAAGATAAGATTGCAAAAATGTACTCACAATTGCGTCAAG
AGTCGTTAGCAACAGGTTCTTTACCTATCACTGTTCGTCACATTGAATCAGTAATTCGAA
TGGCTGAAGCACATGCTCGAATGCATTTGAGAGACACAGTTCAAGATGTTGATGTCAATA
TGGCAATTCGAATGATGCTTGAAAGTTTCATTGCCGCTCAAAAGTTCTCGGTCATGAAAA
AGATGCAGGTCACATTCCAAAGATATTTGACATTCCAAAAAGATTATTCAGAGTTGCTCT
TCTTCATTCTTCGTCAACTTACACTCGATCAACTTGCATACATTCGTTACAAGCAAGGAC
CATCAGCAACTCATGTCGAAATTTTGGAAAAAGATTTACTCGAACGTGCTAAACAAATTG
ATATTCACAATTTATCCAAATTTTATGAGAGTGAAATTTTCAAGAACAATGGTTTCTCAT
ATGATAGCAAACGTAAGACAATTCTACAAGTTGTGCCTGAAGCAGCTACAGTTTAA
>g12531.t5 Gene=g12531 Length=375
MAKSQFLKYAEKIAPRAVFTTGQGASAVGLTAYVRRNPISKEWTLEAGALVLADQGVCLI
DEFDKMNDQDRTSIHEAMEQQSISISKAGIITSLQARCAVIAASNPIGGRYDPSLTFSEN
VNLSEPILSRFDILCVVKDEFDPMQDQRLAEFVVKSHIRHHPSNDDQENENMEDINELEL
PQDLLKKYIVYAKENVRPKLSNMDQDKIAKMYSQLRQESLATGSLPITVRHIESVIRMAE
AHARMHLRDTVQDVDVNMAIRMMLESFIAAQKFSVMKKMQVTFQRYLTFQKDYSELLFFI
LRQLTLDQLAYIRYKQGPSATHVEILEKDLLERAKQIDIHNLSKFYESEIFKNNGFSYDS
KRKTILQVVPEAATV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g12531.t5 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 271 | 1.5E-108 |
| 3 | g12531.t5 | PANTHER | PTHR11630:SF44 | DNA REPLICATION LICENSING FACTOR MCM2 | 2 | 305 | 1.8E-144 |
| 4 | g12531.t5 | PANTHER | PTHR11630 | DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER | 2 | 305 | 1.8E-144 |
| 7 | g12531.t5 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 48 | 62 | 1.0E-22 |
| 6 | g12531.t5 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 76 | 89 | 1.0E-22 |
| 5 | g12531.t5 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 100 | 112 | 1.0E-22 |
| 8 | g12531.t5 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 127 | 135 | 1.0E-22 |
| 2 | g12531.t5 | Pfam | PF00493 | MCM P-loop domain | 1 | 157 | 3.5E-74 |
| 1 | g12531.t5 | Pfam | PF17855 | MCM AAA-lid domain | 183 | 267 | 2.9E-29 |
| 11 | g12531.t5 | ProSitePatterns | PS00847 | MCM family signature. | 56 | 64 | - |
| 13 | g12531.t5 | ProSiteProfiles | PS50051 | MCM family domain profile. | 1 | 153 | 70.385 |
| 12 | g12531.t5 | SMART | SM00350 | mcm | 1 | 268 | 1.4E-75 |
| 9 | g12531.t5 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 3 | 277 | 8.33E-30 |
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:0005524 | ATP binding | MF |
| GO:0006260 | DNA replication | BP |
| GO:0006270 | DNA replication initiation | BP |
| GO:0032508 | DNA duplex unwinding | BP |
| GO:0042555 | MCM complex | CC |
| GO:1905775 | negative regulation of DNA helicase activity | BP |
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.
