Gene loci information

Transcript annotation

  • This transcript has been annotated as DNA replication licensing factor Mcm5.

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_3 g658 g658.t5 TSS g658.t5 5031153 5031153
chr_3 g658 g658.t5 isoform g658.t5 5031371 5032637
chr_3 g658 g658.t5 exon g658.t5.exon1 5031371 5031528
chr_3 g658 g658.t5 exon g658.t5.exon2 5031592 5032017
chr_3 g658 g658.t5 cds g658.t5.CDS1 5031851 5032017
chr_3 g658 g658.t5 exon g658.t5.exon3 5032078 5032637
chr_3 g658 g658.t5 cds g658.t5.CDS2 5032078 5032636
chr_3 g658 g658.t5 TTS g658.t5 NA NA

Sequences

>g658.t5 Gene=g658 Length=1144
ATGGAGGGCTTTGATGATGCTGGAATATTCTTTTCTGATAATTTTGGCGGTGGAGGTGAT
GAGCAAGATGCAGGAATCATCAATTTGCAACAAGTCAAGAAGAAATTCAAAGATTTTATT
CGGACATTTAATGAAGACCATTTTCATTATAAATATCGTGATGCATTAAAAAACAATTAT
TTGCTCGGGAAATTCTTTTTAGAAGTTGAAATGGAAGATATTATTTGATTTGATGAGAAT
TTAGCTGATAAATTAAAGAAACAACCGTCTGAACATTTACAAATTTTCGAGGAAGCAGCT
AAAGAAGTTGCCGATGAAATCACTACACCAAGACCTGATAATGAAGAAGTACAAGATATT
CAAATTCTCATCAATTCAAATACAAATCCAACAAATATTCGTGACCTTAAATCCGAGATG
GTTTCAAAATTGGTAAAAATATCAGGTGTAATTATCTCTGCATCAGGGATCAAAGCTAAA
ACAACGAAAATCACTATTCAATGTCGTTCATGCAACAATACAATGCCAAATTTAACAGTT
AATCCAGGTTTAGAAGGATATGCCTTACCACGAAAATGTAACACTGAACAAGCAGGTCGA
CCGAAATGTCCACTTGATCCTTTTTTCATCATGCCAGACAAATGTAAATGTGTCGATTTC
CAAACACTAAAACTTCAAGAATTGCCAGATTCTGTGCCACAAGGTGAAATTCCACGACAT
ATGCAACTCTTCTGCGATCGTTCTTTATGTGAACGTGTTGTGCCTGGCAATCGTGTTTTG
ATTCAAGGAATTTATTCGATCAAGAAAGTTTCAGGAGGAAAATCAAAAAGTGGAAATGAT
ACACATAAAGCAGTAGTTGGTGTTCGTGCTCCATACATGCGAGTTGTTGGTATCAAAGTT
GATACTGAAATAGGATCAATATCTCGCTATAGCAACATTACTAGTGATGAAGAAGCTGCA
TTCCGTAAGTTAGCAGCAATGCCTGATATTTATGAAAAATTAGCAAAGAGTATAGCACCA
AGTATTTATGGATCAATGGACGTAAAAAAAGCAATTGTTTGCTTACTCTTTGGAGGATCA
AGAAAAAAATTACCTGATGGCTTATTAAGAAGAGGAGATATCAATGTTTTATGTCTTGGT
GATC

>g658.t5 Gene=g658 Length=242
MVSKLVKISGVIISASGIKAKTTKITIQCRSCNNTMPNLTVNPGLEGYALPRKCNTEQAG
RPKCPLDPFFIMPDKCKCVDFQTLKLQELPDSVPQGEIPRHMQLFCDRSLCERVVPGNRV
LIQGIYSIKKVSGGKSKSGNDTHKAVVGVRAPYMRVVGIKVDTEIGSISRYSNITSDEEA
AFRKLAAMPDIYEKLAKSIAPSIYGSMDVKKAIVCLLFGGSRKKLPDGLLRRGDINVLCL
GD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g658.t5 Gene3D G3DSA:2.40.50.140 - 2 137 3.2E-37
10 g658.t5 Gene3D G3DSA:2.20.28.10 - 24 75 3.2E-37
9 g658.t5 Gene3D G3DSA:3.40.50.300 - 175 242 1.8E-18
3 g658.t5 PANTHER PTHR11630:SF42 DNA REPLICATION LICENSING FACTOR MCM5 2 242 7.0E-71
4 g658.t5 PANTHER PTHR11630 DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER 2 242 7.0E-71
6 g658.t5 PRINTS PR01661 Mini-chromosome maintenance (MCM) protein 5 signature 21 33 4.1E-7
5 g658.t5 PRINTS PR01661 Mini-chromosome maintenance (MCM) protein 5 signature 150 162 4.1E-7
1 g658.t5 Pfam PF17207 MCM OB domain 2 129 6.0E-35
2 g658.t5 Pfam PF00493 MCM P-loop domain 179 242 5.3E-17
13 g658.t5 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
14 g658.t5 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 7 -
15 g658.t5 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 8 15 -
16 g658.t5 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 20 -
12 g658.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 242 -
18 g658.t5 ProSiteProfiles PS50051 MCM family domain profile. 191 242 21.369
17 g658.t5 SMART SM00350 mcm 1 242 1.2E-17
7 g658.t5 SUPERFAMILY SSF50249 Nucleic acid-binding proteins 2 137 1.71E-36
8 g658.t5 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 20 -

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:0003688 DNA replication origin binding MF
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: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