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.t8 isoform g12531.t8 24273231 24274280
chr_1 g12531 g12531.t8 exon g12531.t8.exon1 24273231 24274280
chr_1 g12531 g12531.t8 cds g12531.t8.CDS1 24273233 24274087
chr_1 g12531 g12531.t8 TSS g12531.t8 24274469 24274469
chr_1 g12531 g12531.t8 TTS g12531.t8 NA NA

Sequences

>g12531.t8 Gene=g12531 Length=1050
ACCACATGATGATGATTTGCGTTCACCGCCACCAACTCCATATTCGCCATCAACAGCAGC
AGCAACACCAAGATCTAATCGTGAGCAATCACCTGTTGAAGAATTTGAGCCGTTTGAGAA
TGAAGCAGAATTGCTTGGTGAAATTGAAACAGCTGATGAAGAATCAGAGGGCGAAGATTT
ATTTGGAGGCGATATGGAAAGAGATTACCTTCCTAATCCAAGACTCGATAATTATGATCC
TGAATTAGTGGACGATGATGAAAATTACAGTGTCATTAGTGAATCAGAGCGACGTGCTGC
TGAAATGGAAATGAATAGACGAGATCGAGCAGCAGGCATTCATCGTGATGATCGAGATTT
GATGTATGACAAAAGTGATGATGAAAGTGATATTCCGAGCTATAAACGTCGTCGTGCTGA
GAAAGCAATTGAAGGCGTTGAAGAGGAAGAAATGATTGAATCAATTGAAAATCTTGAAGA
CACCAAAGGTCATACGATTAAAGAATGGGTATCAATGCTTGGTCCTCGAACTGAAATTGC
TAATCGATTTAAAAATTTCTTGAGAACATTTGTCGACGAGAAGGGACAACAAACTTATCG
TGATCGCATACGTAAAATGTGTGAACAAAATAAATCAAGCTTCATTGTAGTTTTCTCTGA
GCTTGCTCATCATCAGCATGTTCTTGCTTATTTCTTGCCTGAAGCACCTCAACAAATGTT
GGAAATTTTCGATCAAGTTGCAAAAGAAATGGTTCTTTCAATTTTTCCCACATATGAGAG
AGTTACAAATGAAATTCATGTAAGAATTGCTGATTTACCATTGATTGAAGAATTGAGAAC
TTTTAGAAAACTGCATTTAAATCAATTGGTTCGCACTATGGGAGTTGTTACAGCAACAAC
GGGAGTTTTACCTCAACTCTCTGTTGTTAAATACGATTGTGTGAAATGTGGCTATATTAT
CGGACCATTTGTTCAAAATCAAAATGCTGAAGTAAAGCCTGGATCTTGTCCTGAATGTCA
GAGTGCAGGACCTTTCTCAATAAACATGGA

>g12531.t8 Gene=g12531 Length=285
MERDYLPNPRLDNYDPELVDDDENYSVISESERRAAEMEMNRRDRAAGIHRDDRDLMYDK
SDDESDIPSYKRRRAEKAIEGVEEEEMIESIENLEDTKGHTIKEWVSMLGPRTEIANRFK
NFLRTFVDEKGQQTYRDRIRKMCEQNKSSFIVVFSELAHHQHVLAYFLPEAPQQMLEIFD
QVAKEMVLSIFPTYERVTNEIHVRIADLPLIEELRTFRKLHLNQLVRTMGVVTATTGVLP
QLSVVKYDCVKCGYIIGPFVQNQNAEVKPGSCPECQSAGPFSINM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g12531.t8 Gene3D G3DSA:3.30.1640.10 - 111 210 5.2E-37
10 g12531.t8 MobiDBLite mobidb-lite consensus disorder prediction 39 67 -
4 g12531.t8 PANTHER PTHR11630:SF44 DNA REPLICATION LICENSING FACTOR MCM2 77 285 9.5E-58
5 g12531.t8 PANTHER PTHR11630 DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER 77 285 9.5E-58
7 g12531.t8 PRINTS PR01658 Mini-chromosome maintenance (MCM) protein 2 signature 223 240 3.0E-13
6 g12531.t8 PRINTS PR01658 Mini-chromosome maintenance (MCM) protein 2 signature 246 258 3.0E-13
8 g12531.t8 PRINTS PR01658 Mini-chromosome maintenance (MCM) protein 2 signature 281 285 3.0E-13
2 g12531.t8 Pfam PF12619 Mini-chromosome maintenance protein 2 1 94 7.7E-10
3 g12531.t8 Pfam PF14551 MCM N-terminal domain 117 205 1.0E-17
1 g12531.t8 Pfam PF17207 MCM OB domain 214 284 1.9E-11
9 g12531.t8 SUPERFAMILY SSF50249 Nucleic acid-binding proteins 118 284 1.88E-33

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