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.t6 TSS g658.t6 5031153 5031153
chr_3 g658 g658.t6 isoform g658.t6 5031371 5033757
chr_3 g658 g658.t6 exon g658.t6.exon1 5031371 5031528
chr_3 g658 g658.t6 exon g658.t6.exon2 5031592 5032017
chr_3 g658 g658.t6 cds g658.t6.CDS1 5031851 5032017
chr_3 g658 g658.t6 exon g658.t6.exon3 5032078 5032640
chr_3 g658 g658.t6 cds g658.t6.CDS2 5032078 5032640
chr_3 g658 g658.t6 exon g658.t6.exon4 5032700 5033757
chr_3 g658 g658.t6 cds g658.t6.CDS3 5032700 5033757
chr_3 g658 g658.t6 TTS g658.t6 5033957 5033957

Sequences

>g658.t6 Gene=g658 Length=2205
ATGGAGGGCTTTGATGATGCTGGAATATTCTTTTCTGATAATTTTGGCGGTGGAGGTGAT
GAGCAAGATGCAGGAATCATCAATTTGCAACAAGTCAAGAAGAAATTCAAAGATTTTATT
CGGACATTTAATGAAGACCATTTTCATTATAAATATCGTGATGCATTAAAAAACAATTAT
TTGCTCGGGAAATTCTTTTTAGAAGTTGAAATGGAAGATATTATTTGATTTGATGAGAAT
TTAGCTGATAAATTAAAGAAACAACCGTCTGAACATTTACAAATTTTCGAGGAAGCAGCT
AAAGAAGTTGCCGATGAAATCACTACACCAAGACCTGATAATGAAGAAGTACAAGATATT
CAAATTCTCATCAATTCAAATACAAATCCAACAAATATTCGTGACCTTAAATCCGAGATG
GTTTCAAAATTGGTAAAAATATCAGGTGTAATTATCTCTGCATCAGGGATCAAAGCTAAA
ACAACGAAAATCACTATTCAATGTCGTTCATGCAACAATACAATGCCAAATTTAACAGTT
AATCCAGGTTTAGAAGGATATGCCTTACCACGAAAATGTAACACTGAACAAGCAGGTCGA
CCGAAATGTCCACTTGATCCTTTTTTCATCATGCCAGACAAATGTAAATGTGTCGATTTC
CAAACACTAAAACTTCAAGAATTGCCAGATTCTGTGCCACAAGGTGAAATTCCACGACAT
ATGCAACTCTTCTGCGATCGTTCTTTATGTGAACGTGTTGTGCCTGGCAATCGTGTTTTG
ATTCAAGGAATTTATTCGATCAAGAAAGTTTCAGGAGGAAAATCAAAAAGTGGAAATGAT
ACACATAAAGCAGTAGTTGGTGTTCGTGCTCCATACATGCGAGTTGTTGGTATCAAAGTT
GATACTGAAATAGGATCAATATCTCGCTATAGCAACATTACTAGTGATGAAGAAGCTGCA
TTCCGTAAGTTAGCAGCAATGCCTGATATTTATGAAAAATTAGCAAAGAGTATAGCACCA
AGTATTTATGGATCAATGGACGTAAAAAAAGCAATTGTTTGCTTACTCTTTGGAGGATCA
AGAAAAAAATTACCTGATGGCTTATTAAGAAGAGGAGATATCAATGTTTTATGTCTTGGT
GATCCTGGAACTGCAAAATCACAATTACTTAAATTTGTTGAAAAAGTTTCCCCAATTGGA
GTGTATACTTCAGGCAAAGGTTCAAGTGCCGCAGGTTTAACTGCTTCAGTCATGCGTGAT
CCATCAACAAGAAATTTCGTAATGGAAGGTGGTGCTATGGTTCTTGCGGATGGTGGTGTT
GTGTGTATTGACGAATTCGATAAAATGAAAGAAGATGATCGTGTTGCTATTCATGAAGCT
ATGGAACAAGGAACAATTTCACTTGCAAAAGCAGGCATTACTACGACATTAAATTCACGC
TGCTCTGTTTTTGCTGCTGCCAATTCAATTTTTGGTCGATGGGATGATACAAAAGGAGAA
GAGAATATTGATTTTATGCCAACAATTTTGTCACGTTTCGATATGATTTTCATTATTAAA
GATGTTCATGATCAAACGCGTGATATCACTTTAGCGAAACACGTCATCAATGTACATTTA
AATGCTAATAAAGCAACAACTGTCGAACAAGAGGGCGAAATTCCGTTAAATGTTTTGAAA
AAATATATTCATTATTGTCGCACTCATTGTGGACCACGATTGAGTCAAGAAGCTGGAGAA
AAATTACGCAGTCGTTATGTGTTAATGAGATCAGGTGCAAATCAACAAGAAAAAGCAGCT
GATCGTCGTTTGACAATTCCAATTACTGTACGACAGCTTGAAGCCATCATTCGTATATCG
GAAGCGTTGGCAAAACTTCAATTGAAACCATTTGCGACAGACGAACATGTCAATGAAGCA
TTACGCTTATTCCAAGTGTCAACATTAGAGGCAGCTACATCAGGAACTTTGGCAGGTGTT
GAAGGATTTACGACCGAAGAAGATCACGATATGCTCAATCGAATCGAAAAGCAATTAAAG
CGTCGTTTTGCAATCGGCTCACAAGTCTCAGAGCAAAATATCATTCAAGATTTTGTAAGA
CAAAAATATCCTGAACGTGCTATAATGAAGGTCATTACCACAATGATTCGACGCGGTGAA
TTGCAACATCGTATGCAAAGAAAAATGCTATATCGTTTAGCTTAA

>g658.t6 Gene=g658 Length=595
MVSKLVKISGVIISASGIKAKTTKITIQCRSCNNTMPNLTVNPGLEGYALPRKCNTEQAG
RPKCPLDPFFIMPDKCKCVDFQTLKLQELPDSVPQGEIPRHMQLFCDRSLCERVVPGNRV
LIQGIYSIKKVSGGKSKSGNDTHKAVVGVRAPYMRVVGIKVDTEIGSISRYSNITSDEEA
AFRKLAAMPDIYEKLAKSIAPSIYGSMDVKKAIVCLLFGGSRKKLPDGLLRRGDINVLCL
GDPGTAKSQLLKFVEKVSPIGVYTSGKGSSAAGLTASVMRDPSTRNFVMEGGAMVLADGG
VVCIDEFDKMKEDDRVAIHEAMEQGTISLAKAGITTTLNSRCSVFAAANSIFGRWDDTKG
EENIDFMPTILSRFDMIFIIKDVHDQTRDITLAKHVINVHLNANKATTVEQEGEIPLNVL
KKYIHYCRTHCGPRLSQEAGEKLRSRYVLMRSGANQQEKAADRRLTIPITVRQLEAIIRI
SEALAKLQLKPFATDEHVNEALRLFQVSTLEAATSGTLAGVEGFTTEEDHDMLNRIEKQL
KRRFAIGSQVSEQNIIQDFVRQKYPERAIMKVITTMIRRGELQHRMQRKMLYRLA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
26 g658.t6 CDD cd17756 MCM5 194 508 0.0
20 g658.t6 Gene3D G3DSA:2.40.50.140 - 2 137 2.3E-36
19 g658.t6 Gene3D G3DSA:2.20.28.10 - 24 75 2.3E-36
18 g658.t6 Gene3D G3DSA:3.40.50.300 - 175 515 2.0E-134
4 g658.t6 PANTHER PTHR11630:SF42 DNA REPLICATION LICENSING FACTOR MCM5 2 535 2.4E-206
5 g658.t6 PANTHER PTHR11630 DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER 2 535 2.4E-206
14 g658.t6 PRINTS PR01661 Mini-chromosome maintenance (MCM) protein 5 signature 21 33 8.1E-27
13 g658.t6 PRINTS PR01661 Mini-chromosome maintenance (MCM) protein 5 signature 150 162 8.1E-27
8 g658.t6 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 232 247 4.1E-31
10 g658.t6 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 292 306 4.1E-31
9 g658.t6 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 320 333 4.1E-31
7 g658.t6 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 344 356 4.1E-31
6 g658.t6 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 370 378 4.1E-31
12 g658.t6 PRINTS PR01661 Mini-chromosome maintenance (MCM) protein 5 signature 427 442 8.1E-27
11 g658.t6 PRINTS PR01661 Mini-chromosome maintenance (MCM) protein 5 signature 503 520 8.1E-27
2 g658.t6 Pfam PF17207 MCM OB domain 2 129 4.0E-34
3 g658.t6 Pfam PF00493 MCM P-loop domain 179 400 1.1E-98
1 g658.t6 Pfam PF17855 MCM AAA-lid domain 419 508 4.5E-29
22 g658.t6 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
23 g658.t6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 7 -
24 g658.t6 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 8 15 -
25 g658.t6 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 20 -
21 g658.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 595 -
28 g658.t6 ProSitePatterns PS00847 MCM family signature. 300 308 -
29 g658.t6 ProSiteProfiles PS50051 MCM family domain profile. 191 396 91.596
27 g658.t6 SMART SM00350 mcm 1 510 1.6E-275
16 g658.t6 SUPERFAMILY SSF50249 Nucleic acid-binding proteins 2 137 1.1E-35
15 g658.t6 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 201 511 9.46E-38
17 g658.t6 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:0006260 DNA replication BP
GO:0006270 DNA replication initiation BP
GO:0032508 DNA duplex unwinding BP
GO:0042555 MCM complex CC

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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