Gene loci information

Transcript annotation

  • This transcript has been annotated as DNA replication licensing factor Mcm6.

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_2 g6299 g6299.t15 TTS g6299.t15 16028838 16028838
chr_2 g6299 g6299.t15 isoform g6299.t15 16029526 16030358
chr_2 g6299 g6299.t15 exon g6299.t15.exon1 16029526 16030358
chr_2 g6299 g6299.t15 cds g6299.t15.CDS1 16029528 16030091
chr_2 g6299 g6299.t15 TSS g6299.t15 NA NA

Sequences

>g6299.t15 Gene=g6299 Length=833
AATGATGAAGTCAAGAAAGGAGTTTTATTGCAACTTTTTGGTGGAGTTGGGAAAACAACT
CATGAAAAGACTACACTTCGTGGTGATATCAATGTTTGTATTGTAGGCGATCCATCAACA
GCAAAATCTCAATTACTCAAACAAGTTGCAGACTTTTCACCTAGAGCAGTATACACTTCA
GGAAAAGCATCTTCGGCTGCTGGTTTAACAGCTGCTGTGGTCAGAGATGAGGAAAGTTTT
GATTTTGTTATTGAAGCTGGTGCTTTGATGTTGGCTGATAATGGAATTTGTTGTATTGAT
GAATTTGATAAAATGGATCCACGCGATCAAGTTGCAATTCACGAAGCTATGGAACAGCAG
ACAATTTCCATCGCAAAAGCAGGAGTTCGTGCTACACTAAACGCTCGAACGTCAATTTTA
GCTGCTGCAAATCCAATCAATGGTCGATATGATCGCTCAAAATCACTTCAACAAAATATT
ATGCTCTCTGCTCCAATTATGTCACGTTTTGATTTATTCTTTATTCTTGTTGATGAATGT
AATGAAATTGTTGATTATGCAATTGCTAGAAAAATTGTTGATCTTCATACAAATGCACAA
ACAACAACAATTGAACAAGTTTATCAACGTGAAGATGTGCTTCGTTATATCACATTCGCT
CGTCAATTTAAGCCAATGATTTCAAAAGAATCAATGAAGTTACTTGTTGAGAATTATAGT
CATCTAAGACAGAGAGATACTGGCAGCAGCAAAAATACATGGCGTATCACAGTTCGTCAA
CTTGAAAGTATGATTCGGTTGAGTGAAGCTCAAGCGAAAATGGAATGTTCAGG

>g6299.t15 Gene=g6299 Length=188
MLADNGICCIDEFDKMDPRDQVAIHEAMEQQTISIAKAGVRATLNARTSILAAANPINGR
YDRSKSLQQNIMLSAPIMSRFDLFFILVDECNEIVDYAIARKIVDLHTNAQTTTIEQVYQ
REDVLRYITFARQFKPMISKESMKLLVENYSHLRQRDTGSSKNTWRITVRQLESMIRLSE
AQAKMECS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g6299.t15 Gene3D G3DSA:3.40.50.300 - 1 188 5.6E-72
3 g6299.t15 PANTHER PTHR11630:SF93 DNA HELICASE 1 188 1.7E-98
4 g6299.t15 PANTHER PTHR11630 DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER 1 188 1.7E-98
5 g6299.t15 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 26 39 9.6E-16
7 g6299.t15 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 50 62 9.6E-16
6 g6299.t15 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 77 85 9.6E-16
2 g6299.t15 Pfam PF00493 MCM P-loop domain 1 107 7.9E-51
1 g6299.t15 Pfam PF17855 MCM AAA-lid domain 124 188 8.3E-22
10 g6299.t15 ProSitePatterns PS00847 MCM family signature. 6 14 -
12 g6299.t15 ProSiteProfiles PS50051 MCM family domain profile. 1 103 48.933
11 g6299.t15 SMART SM00350 mcm 1 188 5.3E-16
8 g6299.t15 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 2 186 5.87E-23

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:0003677 DNA binding MF
GO:0005524 ATP binding MF
GO:0006260 DNA replication 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