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.t4 TTS g12531.t4 24271272 24271272
chr_1 g12531 g12531.t4 isoform g12531.t4 24271421 24272692
chr_1 g12531 g12531.t4 exon g12531.t4.exon1 24271421 24271531
chr_1 g12531 g12531.t4 cds g12531.t4.CDS1 24271421 24271531
chr_1 g12531 g12531.t4 exon g12531.t4.exon2 24271592 24271908
chr_1 g12531 g12531.t4 cds g12531.t4.CDS2 24271592 24271908
chr_1 g12531 g12531.t4 exon g12531.t4.exon3 24272165 24272692
chr_1 g12531 g12531.t4 cds g12531.t4.CDS3 24272165 24272381
chr_1 g12531 g12531.t4 TSS g12531.t4 NA NA

Sequences

>g12531.t4 Gene=g12531 Length=956
ATGCTGGTATGGCAAAATCTCAATTTTTGAAATATGCTGAAAAGATTGCTCCTCGTGCTG
TTTTCACAACTGGTCAAGGTGCTAGTGCAGTAGGTCTGACAGCTTATGTTCGAAGAAATC
CTATTTCCAAAGAATGGACACTTGAAGCGGGTGCATTAGTTTTGGCTGATCAAGGAGTTT
GCTTAATTGATGAATTTGATAAAATGGTTTGTATCAATTAAATTTTAATCAAAGGGTTGA
AGTTCATAATTGAAAAAATATTTTTGTTTATTATATAGAATGATCAAGATCGTACATCAA
TTCATGAAGCTATGGAACAACAATCAATTAGTATTTCAAAAGCAGGCATTATAACATCTT
TACAAGCTCGTTGTGCAGTTATTGCTGCATCAAATCCTATTGGTGGTCGTTATGATCCGA
GTTTGACGTTCTCTGAAAATGTGAATCTCTCGGAACCAATTTTATCGCGTTTTGACATTT
TGTGTGTTGTAAAAGATGAATTTGACCCTATGCAAGATCAACGTTTAGAATTGCGTCAAG
AGTCGTTAGCAACAGGTTCTTTACCTATCACTGTTCGTCACATTGAATCAGTAATTCGAA
TGGCTGAAGCACATGCTCGAATGCATTTGAGAGACACAGTTCAAGATGTTGATGTCAATA
TGGCAATTCGAATGATGCTTGAAAGTTTCATTGCCGCTCAAAAGTTCTCGGTCATGAAAA
AGATGCAGGTCACATTCCAAAGATATTTGACATTCCAAAAAGATTATTCAGAGTTGCTCT
TCTTCATTCTTCGTCAACTTACACTCGATCAACTTGCATACATTCGTTACAAGCAAGGAC
CATCACACAATTTATCCAAATTTTATGAGAGTGAAATTTTCAAGAACAATGGTTTCTCAT
ATGATAGCAAACGTAAGACAATTCTACAAGTTGTGCCTGAAGCAGCTACAGTTTAA

>g12531.t4 Gene=g12531 Length=214
MEQQSISISKAGIITSLQARCAVIAASNPIGGRYDPSLTFSENVNLSEPILSRFDILCVV
KDEFDPMQDQRLELRQESLATGSLPITVRHIESVIRMAEAHARMHLRDTVQDVDVNMAIR
MMLESFIAAQKFSVMKKMQVTFQRYLTFQKDYSELLFFILRQLTLDQLAYIRYKQGPSHN
LSKFYESEIFKNNGFSYDSKRKTILQVVPEAATV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g12531.t4 Gene3D G3DSA:3.40.50.300 - 1 71 0.0000000
12 g12531.t4 Gene3D G3DSA:3.40.50.300 - 72 130 0.0000000
3 g12531.t4 PANTHER PTHR11630:SF44 DNA REPLICATION LICENSING FACTOR MCM2 1 72 0.0000000
5 g12531.t4 PANTHER PTHR11630 DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER 1 72 0.0000000
4 g12531.t4 PANTHER PTHR11630:SF44 DNA REPLICATION LICENSING FACTOR MCM2 73 164 0.0000000
6 g12531.t4 PANTHER PTHR11630 DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER 73 164 0.0000000
8 g12531.t4 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 23 35 0.0000054
7 g12531.t4 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 50 58 0.0000054
2 g12531.t4 Pfam PF00493 MCM P-loop domain 1 72 0.0000000
1 g12531.t4 Pfam PF17855 MCM AAA-lid domain 68 126 0.0000000
13 g12531.t4 ProSiteProfiles PS50051 MCM family domain profile. 1 72 31.1290000
10 g12531.t4 SMART SM00350 mcm 1 127 0.0000007
9 g12531.t4 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 1 137 0.0000000

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. There were no conditions that were differentially expressed