Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t9 isoform g12531.t9 24273666 24274364
chr_1 g12531 g12531.t9 exon g12531.t9.exon1 24273666 24274282
chr_1 g12531 g12531.t9 cds g12531.t9.CDS1 24273668 24274282
chr_1 g12531 g12531.t9 exon g12531.t9.exon2 24274350 24274364
chr_1 g12531 g12531.t9 cds g12531.t9.CDS2 24274350 24274364
chr_1 g12531 g12531.t9 TSS g12531.t9 24274469 24274469
chr_1 g12531 g12531.t9 TTS g12531.t9 NA NA

Sequences

>g12531.t9 Gene=g12531 Length=632
ATGTCTCAAAACGGAACACCACATGATGATGATTTGCGTTCACCGCCACCAACTCCATAT
TCGCCATCAACAGCAGCAGCAACACCAAGATCTAATCGTGAGCAATCACCTGTTGAAGAA
TTTGAGCCGTTTGAGAATGAAGCAGAATTGCTTGGTGAAATTGAAACAGCTGATGAAGAA
TCAGAGGGCGAAGATTTATTTGGAGGCGATATGGAAAGAGATTACCTTCCTAATCCAAGA
CTCGATAATTATGATCCTGAATTAGTGGACGATGATGAAAATTACAGTGTCATTAGTGAA
TCAGAGCGACGTGCTGCTGAAATGGAAATGAATAGACGAGATCGAGCAGCAGGCATTCAT
CGTGATGATCGAGATTTGATGTATGACAAAAGTGATGATGAAAGTGATATTCCGAGCTAT
AAACGTCGTCGTGCTGAGAAAGCAATTGAAGGCGTTGAAGAGGAAGAAATGATTGAATCA
ATTGAAAATCTTGAAGACACCAAAGGTCATACGATTAAAGAATGGGTATCAATGCTTGGT
CCTCGAACTGAAATTGCTAATCGATTTAAAAATTTCTTGAGAACATTTGTCGACGAGAAG
GGACAACAAACTTATCGTGATCGCATACGTAA

>g12531.t9 Gene=g12531 Length=210
MSQNGTPHDDDLRSPPPTPYSPSTAAATPRSNREQSPVEEFEPFENEAELLGEIETADEE
SEGEDLFGGDMERDYLPNPRLDNYDPELVDDDENYSVISESERRAAEMEMNRRDRAAGIH
RDDRDLMYDKSDDESDIPSYKRRRAEKAIEGVEEEEMIESIENLEDTKGHTIKEWVSMLG
PRTEIANRFKNFLRTFVDEKGQQTYRDRIR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g12531.t9 Gene3D G3DSA:3.30.1640.10 - 181 210 2.5E-5
4 g12531.t9 MobiDBLite mobidb-lite consensus disorder prediction 1 139 -
2 g12531.t9 MobiDBLite mobidb-lite consensus disorder prediction 41 67 -
3 g12531.t9 MobiDBLite mobidb-lite consensus disorder prediction 96 139 -
1 g12531.t9 Pfam PF12619 Mini-chromosome maintenance protein 2 47 164 8.8E-17

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

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