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.t1 TTS g6299.t1 16028838 16028838
chr_2 g6299 g6299.t1 isoform g6299.t1 16028970 16031526
chr_2 g6299 g6299.t1 exon g6299.t1.exon1 16028970 16031181
chr_2 g6299 g6299.t1 cds g6299.t1.CDS1 16028970 16031181
chr_2 g6299 g6299.t1 exon g6299.t1.exon2 16031234 16031377
chr_2 g6299 g6299.t1 cds g6299.t1.CDS2 16031234 16031377
chr_2 g6299 g6299.t1 exon g6299.t1.exon3 16031435 16031526
chr_2 g6299 g6299.t1 cds g6299.t1.CDS3 16031435 16031526
chr_2 g6299 g6299.t1 TSS g6299.t1 16031671 16031671

Sequences

>g6299.t1 Gene=g6299 Length=2448
ATGGATGTTGCTGATACTCATGCAGGACGTTTATTAGTGAAAGATGAAGTTTCTCTGAGA
TGCCAAAAATTGTTTGCTGATTTCCTCGAAGAATATAAAGAAGATGGAGAAGTCAAATAT
TTGCGTAGTGCAATGGAACTTCAAAATCCAGATCGATTCACACTCGAGGTTAATTTTGAA
GACATAGAAAAGTACAATCAATATTTATCAACAGCGATTATTGAAGAATATTATCGCATT
TATCCATTCTTGTGTCAAGCAGTTTCAAATTTTGTCAAAGATCGAAGTGAATCAAAAAAA
TCTAAAGAGTGTTATGTCTCATTCACTGATGTTCCTACACGTCATAAAGTTCGTGAATTA
ACCACAACAAAAATTGGTACACTTATTCGTATCTCAGGTCAAGTTGTTCGCACTCATCCT
GTGCATCCTGAGCTCGTTTCTGGTACTTTTATGTGCATGGATTGTCAAACAGAAATAAGA
GATGTTGAACAACAATTTAAATTTACAAATCCAACAATTTGTCGCAATCCCGTTTGCTCA
AATCGTCGTCGTTTCATGCTCGAAGTCGATAAGAGTCTTTTTGTTGATTTCCAAAAAGTA
AGAATTCAAGAAACTCAAGCAGAATTACCAAGAGGTGCTATCCCTCGATCAGTTGAAATC
ATTTTGCGTGCAGAAAATGTTGAGACAGTTCAAGCTGGTGATCGTTATGATTTCACTGGA
ACATTAATTGTTGTGCCAGATGTCGGCTCAATTCAATTACCCGGAGCTAAAGCTGATGTA
AGATCACACCATAAACAAGGAGAAAATACAGGACAGGGTGTTAAGGGATTGAAATCGCTT
GGTGTTCGTGAATTGAATTATCGAATGGCATTTTTGGCATGTTCAGTTCAAGCAACTTCT
TCGCGTTTTGGTGGCACTGATTTGCCAATGAGTGAAGTAACAGCCGAAGATATGAAAGCT
AGAATGACTGAAGATGAATGGAATAAAGTGTACGAAATGTCGCGTGATACAAAGTTATAT
CAGAATCTCATTAACAGTTTATTCCCTTCAATTTATGGCAATGATGAAGTCAAGAAAGGA
GTTTTATTGCAACTTTTTGGTGGAGTTGGGAAAACAACTCATGAAAAGACTACACTTCGT
GGTGATATCAATGTTTGTATTGTAGGCGATCCATCAACAGCAAAATCTCAATTACTCAAA
CAAGTTGCAGACTTTTCACCTAGAGCAGTATACACTTCAGGAAAAGCATCTTCGGCTGCT
GGTTTAACAGCTGCTGTGGTCAGAGATGAGGAAAGTTTTGATTTTGTTATTGAAGCTGGT
GCTTTGATGTTGGCTGATAATGGAATTTGTTGTATTGATGAATTTGATAAAATGGATCCA
CGCGATCAAGTTGCAATTCACGAAGCTATGGAACAGCAGACAATTTCCATCGCAAAAGCA
GGAGTTCGTGCTACACTAAACGCTCGAACGTCAATTTTAGCTGCTGCAAATCCAATCAAT
GGTCGATATGATCGCTCAAAATCACTTCAACAAAATATTATGCTCTCTGCTCCAATTATG
TCACGTTTTGATTTATTCTTTATTCTTGTTGATGAATGTAATGAAATTGTTGATTATGCA
ATTGCTAGAAAAATTGTTGATCTTCATACAAATGCACAAACAACAACAATTGAACAAGTT
TATCAACGTGAAGATGTGCTTCGTTATATCACATTCGCTCGTCAATTTAAGCCAATGATT
TCAAAAGAATCAATGAAGTTACTTGTTGAGAATTATAGTCATCTAAGACAGAGAGATACT
GGCAGCAGCAAAAATACATGGCGTATCACAGTTCGTCAACTTGAAAGTATGATTCGGTTG
AGTGAAGCTCAAGCGAAAATGGAATGTTCAGGAGAAGTTTTACCACGTCATGTTCATGAA
GCATATCGACTTTTGAATAAATCAATTATACGTGTTGAGCAACCGGACATTCATCTTGGT
GATGATGAAAACATGATGGAAGTTGATGAAACACCTGAAAATGGTAACGGTCATGAAAAT
GGCGAGAACGGTGAAAATGATGAAGAACAAGTACAGACTAAGAAAACATTTTCACTTACA
TTTGATGAATATAAAAATCTCTCAAATATGCTCATTCTTCATTTACGAGAAGAAGAATCA
AAATGTATTGCCGCAGGCACAGACACTGAAGGTATCAAAAAGAGTGAGCTTGTACAATGG
TATTTAGAACAAATTCAAGATTTGCTTGAGTCAGAAGATGATTTAATTGAAAGAAAAATG
CTGGCCGAGCGACTAATTGATCGACTTATCACACATGATCAAGTGTTAATTCCACTTAAA
ACAACAGAACTCAAATCACAGAAAGGCAAAGTACCAACAACAGAAAGTGAAACTGAAGAA
GATGATCCATTTTTAATGGTTCATCCAAATTATGTCATTGAAAAATAA

>g6299.t1 Gene=g6299 Length=815
MDVADTHAGRLLVKDEVSLRCQKLFADFLEEYKEDGEVKYLRSAMELQNPDRFTLEVNFE
DIEKYNQYLSTAIIEEYYRIYPFLCQAVSNFVKDRSESKKSKECYVSFTDVPTRHKVREL
TTTKIGTLIRISGQVVRTHPVHPELVSGTFMCMDCQTEIRDVEQQFKFTNPTICRNPVCS
NRRRFMLEVDKSLFVDFQKVRIQETQAELPRGAIPRSVEIILRAENVETVQAGDRYDFTG
TLIVVPDVGSIQLPGAKADVRSHHKQGENTGQGVKGLKSLGVRELNYRMAFLACSVQATS
SRFGGTDLPMSEVTAEDMKARMTEDEWNKVYEMSRDTKLYQNLINSLFPSIYGNDEVKKG
VLLQLFGGVGKTTHEKTTLRGDINVCIVGDPSTAKSQLLKQVADFSPRAVYTSGKASSAA
GLTAAVVRDEESFDFVIEAGALMLADNGICCIDEFDKMDPRDQVAIHEAMEQQTISIAKA
GVRATLNARTSILAAANPINGRYDRSKSLQQNIMLSAPIMSRFDLFFILVDECNEIVDYA
IARKIVDLHTNAQTTTIEQVYQREDVLRYITFARQFKPMISKESMKLLVENYSHLRQRDT
GSSKNTWRITVRQLESMIRLSEAQAKMECSGEVLPRHVHEAYRLLNKSIIRVEQPDIHLG
DDENMMEVDETPENGNGHENGENGENDEEQVQTKKTFSLTFDEYKNLSNMLILHLREEES
KCIAAGTDTEGIKKSELVQWYLEQIQDLLESEDDLIERKMLAERLIDRLITHDQVLIPLK
TTELKSQKGKVPTTESETEEDDPFLMVHPNYVIEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
25 g6299.t1 CDD cd17757 MCM6 342 648 0.0
23 g6299.t1 Gene3D G3DSA:3.30.1640.10 - 11 113 2.6E-19
24 g6299.t1 Gene3D G3DSA:2.40.50.140 - 117 245 2.0E-32
22 g6299.t1 Gene3D G3DSA:2.20.28.10 - 147 191 2.0E-32
20 g6299.t1 Gene3D G3DSA:3.40.50.300 - 323 654 1.3E-129
21 g6299.t1 Gene3D G3DSA:1.20.58.870 - 692 815 1.2E-37
6 g6299.t1 PANTHER PTHR11630:SF93 DNA HELICASE 7 785 0.0
7 g6299.t1 PANTHER PTHR11630 DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER 7 785 0.0
16 g6299.t1 PRINTS PR01662 Mini-chromosome maintenance (MCM) protein 6 signature 77 89 1.6E-38
13 g6299.t1 PRINTS PR01662 Mini-chromosome maintenance (MCM) protein 6 signature 114 126 1.6E-38
17 g6299.t1 PRINTS PR01662 Mini-chromosome maintenance (MCM) protein 6 signature 164 181 1.6E-38
15 g6299.t1 PRINTS PR01662 Mini-chromosome maintenance (MCM) protein 6 signature 217 228 1.6E-38
14 g6299.t1 PRINTS PR01662 Mini-chromosome maintenance (MCM) protein 6 signature 273 294 1.6E-38
12 g6299.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 380 395 9.5E-34
9 g6299.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 440 454 9.5E-34
10 g6299.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 468 481 9.5E-34
11 g6299.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 492 504 9.5E-34
8 g6299.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 519 527 9.5E-34
5 g6299.t1 Pfam PF14551 MCM N-terminal domain 22 108 1.8E-15
2 g6299.t1 Pfam PF17207 MCM OB domain 116 245 8.2E-36
3 g6299.t1 Pfam PF00493 MCM P-loop domain 327 549 2.3E-103
1 g6299.t1 Pfam PF17855 MCM AAA-lid domain 566 649 7.5E-27
4 g6299.t1 Pfam PF18263 MCM6 C-terminal winged-helix domain 696 813 2.5E-29
26 g6299.t1 ProSitePatterns PS00847 MCM family signature. 448 456 -
28 g6299.t1 ProSiteProfiles PS50051 MCM family domain profile. 339 545 91.863
27 g6299.t1 SMART SM00350 mcm 113 650 2.2E-266
19 g6299.t1 SUPERFAMILY SSF50249 Nucleic acid-binding proteins 24 247 2.74E-57
18 g6299.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 347 668 4.43E-43

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:0006260 DNA replication BP
GO:0006270 DNA replication initiation BP
GO:0032508 DNA duplex unwinding BP
GO:0042555 MCM complex CC
GO:0003678 DNA helicase activity MF

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