Gene loci information

Transcript annotation

  • This transcript has been annotated as DNA replication licensing factor Mcm2.

Parent gene

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.t3 TTS g12531.t3 24271272 24271272
chr_1 g12531 g12531.t3 isoform g12531.t3 24271421 24272414
chr_1 g12531 g12531.t3 exon g12531.t3.exon1 24271421 24271945
chr_1 g12531 g12531.t3 cds g12531.t3.CDS1 24271421 24271945
chr_1 g12531 g12531.t3 exon g12531.t3.exon2 24272010 24272414
chr_1 g12531 g12531.t3 cds g12531.t3.CDS2 24272010 24272381
chr_1 g12531 g12531.t3 TSS g12531.t3 NA NA

Sequences

>g12531.t3 Gene=g12531 Length=930
AATGATCAAGATCGTACATCAATTCATGAAGCTATGGAACAACAATCAATTAGTATTTCA
AAAGCAGGCATTATAACATCTTTACAAGCTCGTTGTGCAGTTATTGCTGCATCAAATCCT
ATTGGTGGTCGTTATGATCCGAGTTTGACGTTCTCTGAAAATGTGAATCTCTCGGAACCA
ATTTTATCGCGTTTTGACATTTTGTGTGTTGTAAAAGATGAATTTGACCCTATGCAAGAT
CAACGTTTAGCTGAATTTGTTGTTAAGTCACACATTCGTCATCATCCATCAAACGATGAT
CAGGAAAACGAAAATATGGAGGACATTAATGAGTTGGAATTACCACAAGATTTATTAAAG
AAATATATTGTTTATGCGAAAGAGAACGTTAGACCCAAATTATCGAATATGGACCAAGAT
AAGATTGCAAAAATGTACTCACAATTGCGTCAAGAGTCGTTAGCAACAGGTTCTTTACCT
ATCACTGTTCGTCACATTGAATCAGTAATTCGAATGGCTGAAGCACATGCTCGAATGCAT
TTGAGAGACACAGTTCAAGATGTTGATGTCAATATGGCAATTCGAATGATGCTTGAAAGT
TTCATTGCCGCTCAAAAGTTCTCGGTCATGAAAAAGATGCAGGTCACATTCCAAAGATAT
TTGACATTCCAAAAAGATTATTCAGAGTTGCTCTTCTTCATTCTTCGTCAACTTACACTC
GATCAACTTGCATACATTCGTTACAAGCAAGGACCATCAGCAACTCATGTCGAAATTTTG
GAAAAAGATTTACTCGAACGTGCTAAACAAATTGATATTCACAATTTATCCAAATTTTAT
GAGAGTGAAATTTTCAAGAACAATGGTTTCTCATATGATAGCAAACGTAAGACAATTCTA
CAAGTTGTGCCTGAAGCAGCTACAGTTTAA

>g12531.t3 Gene=g12531 Length=298
MEQQSISISKAGIITSLQARCAVIAASNPIGGRYDPSLTFSENVNLSEPILSRFDILCVV
KDEFDPMQDQRLAEFVVKSHIRHHPSNDDQENENMEDINELELPQDLLKKYIVYAKENVR
PKLSNMDQDKIAKMYSQLRQESLATGSLPITVRHIESVIRMAEAHARMHLRDTVQDVDVN
MAIRMMLESFIAAQKFSVMKKMQVTFQRYLTFQKDYSELLFFILRQLTLDQLAYIRYKQG
PSATHVEILEKDLLERAKQIDIHNLSKFYESEIFKNNGFSYDSKRKTILQVVPEAATV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g12531.t3 Gene3D G3DSA:3.40.50.300 - 1 194 0.000000
3 g12531.t3 PANTHER PTHR11630:SF44 DNA REPLICATION LICENSING FACTOR MCM2 1 228 0.000000
4 g12531.t3 PANTHER PTHR11630 DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER 1 228 0.000000
6 g12531.t3 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 23 35 0.000009
5 g12531.t3 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 50 58 0.000009
2 g12531.t3 Pfam PF00493 MCM P-loop domain 1 80 0.000000
1 g12531.t3 Pfam PF17855 MCM AAA-lid domain 106 190 0.000000
10 g12531.t3 ProSiteProfiles PS50051 MCM family domain profile. 1 76 32.959000
8 g12531.t3 SMART SM00350 mcm 1 191 0.000000
7 g12531.t3 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 1 201 0.000000

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:0042555 MCM complex CC
GO:0006270 DNA replication initiation BP
GO:1905775 negative regulation of DNA helicase activity BP
GO:0032508 DNA duplex unwinding 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.

Raw TPM values