Gene loci information

Transcript annotation

  • This transcript has been annotated as DNA replication licensing factor Mcm7.

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 g6252 g6252.t1 TSS g6252.t1 15616922 15616922
chr_2 g6252 g6252.t1 isoform g6252.t1 15617769 15620100
chr_2 g6252 g6252.t1 exon g6252.t1.exon1 15617769 15617799
chr_2 g6252 g6252.t1 cds g6252.t1.CDS1 15617769 15617799
chr_2 g6252 g6252.t1 exon g6252.t1.exon2 15617858 15618966
chr_2 g6252 g6252.t1 cds g6252.t1.CDS2 15617858 15618966
chr_2 g6252 g6252.t1 exon g6252.t1.exon3 15619019 15619228
chr_2 g6252 g6252.t1 cds g6252.t1.CDS3 15619019 15619228
chr_2 g6252 g6252.t1 exon g6252.t1.exon4 15619288 15620100
chr_2 g6252 g6252.t1 cds g6252.t1.CDS4 15619288 15620100
chr_2 g6252 g6252.t1 TTS g6252.t1 15620174 15620174

Sequences

>g6252.t1 Gene=g6252 Length=2163
ATGGCTGGAAGAAATTATTCTGAAGATGTTGAGACCATTAAAAATTTTCTAACTGAATTC
TGCTCAAGCGATGATGAAGGAAACAAGATTTTTAAGTATGCCTCTCAGCTTATTCGCTTA
GCTCATCGTGAGCAAGTAAACATCACAATTGATTTAGATGATTTAGCAGATTATGATGAA
ACTCTCGCTCAAGCCATTCAACAAAATACTCGTCGTTATGCTATCATGTTCTCAAACGTT
ATTCAAGAGCTTCTACCAAACTATAAAGAACGTGAAGTTGTTGCAAAAGATTCACTTGAT
GTCTATATTGAACATCGTATGCTAATGGAGTCTCGATCAAGAAATCCAATGGAACAAAGA
GATCCTCGCAATTCATTTCCACCGGAACTTATGAGACGCTTCGAAGTTTCATTTAAAGCA
TCAAATACAACAAAAGCACTTTCTGTTCGTGAAATTAAAGCCGAACATATTGGCAAATTG
ATGACAGTTCGTGGTATTGTAACAAGATGTACTGAAGTAAAACCAATGATGATTGTCGCT
ACATATACTTGCGACCGCTGTGGAGCAGAAACATATCAACCAGTTAATTCAATGGCTTTT
TTGCCTGTTACTGATTGTCCTTCAGAAGATTGCCGTGTCAATAAAGCAGGTGGTCGTTTG
TATTTGCAAACTCGTGGCAGTAAATTCGTGAAATTCCAAGAAGTGAAAATTCAAGAACAC
AGCGATCAAGTACCAGTTGGTCACATTCCACGAACACTCACGATTGCTTGTCGTGGTGAG
CAAACAAGAAATTGTCAACCAGGTGATCACGTTTTGATTACTGGTGTTTTTTTACCAAAA
CAACGTCATGGATATAGACAAATGCAAAGTGGTCTTTTGAATGAAACTTTTATGGAAGCT
CATCGCATTGTTGCGCTCAATAAATCTGATGAAACTGAATCATTATCAAATGACCTCACA
CCAGAGGAAATTCAAGAACTCTCAAGGGATGATTTTTATACAAGAATGGCTTCAAGTTTA
GCTCCTGAGATTTATGGACATTTAGATGTAAAGAAAGCATTACTTCTGTTGCTTATTGGT
GGTGTTGATAAGAGTCCTGATGGTATGAAAATCAGAGGAAATATCAATATTTTGTTAATG
GGTGATCCTGGTGTTGCAAAATCACAACTTTTAGGCTATATTAGTCGAATTGCAACACGC
TCACAATATACTACTGGTCGTGGTTCAAGTGGTGTTGGTTTAACTGCTGCTGTTATGAAA
GATCCTCATACTGGCGAAATGACACTCGAAGGTGGAGCTTTAGTTTTGGCTGATCAAGGC
GTTTGTTGTATTGATGAGTTTGATAAAATGGCTGAAAATGACAGAACATCGATTCATGAA
GTTATGGAACAGCAGACAATTTCAATCGCTAAAGCTGGAATTATGACAACACTCAATGCT
CGTGTTTCAATTTTGGCAGCTGCAAATCCTGCTTATGGTCGTTATAATACAAAACGTTCA
ATCGAGCAAAATGTTCAATTACCAGCAGCACTTCTTTCATGTTTTGATTTATTGTGGCTT
ATTCAAGACAAGCCAGATAGAGAAAATGATTTGCGTTTGGCTCATCACATTACATTTGTC
CATAGTCACGGGAAACAGCCACCATCTAATGTTGAAGCTCTTGATATGAATCTCGTTCGT
CGTTACATCAATCTGTGTAAAAGAAAAAATCCAACAATCCCTCAAGATTTGACTGAATAC
ATTGTTAATGCTTATGTCGAGTTGAGACGTGAAGCAAGAAATAATCGAGACATGACATTC
ACATCAGCTCGTAATTTGCTTGGTATTTTGCGTCTTTCAACAGCTCTTGCTCGCTTACGT
CTTGCTAGTACTGTTGAAAAGAGTGATGTAGCTGAAGCATTGCGTTTACTTGAAATGTCG
AAAGATTCATTAAATCAGAGCACAGATCAACGCACAAATGTCGTTCAAAATATATCAGAT
CGTATTTTTGCTATCATTCGTGAATTGGCTGGCAATCAAAAAACTGTCAAAATTTCAGAT
GTTATGGATCGCTGCACAACAAAAGGCTATAAACCAGATCAAGTTGATGTGTGCATTGAA
GAATACGAAGAGCTTAATGTTTGGCAAGTTAATCAGACACGCACAAAAATTACCTTCATT
TAA

>g6252.t1 Gene=g6252 Length=720
MAGRNYSEDVETIKNFLTEFCSSDDEGNKIFKYASQLIRLAHREQVNITIDLDDLADYDE
TLAQAIQQNTRRYAIMFSNVIQELLPNYKEREVVAKDSLDVYIEHRMLMESRSRNPMEQR
DPRNSFPPELMRRFEVSFKASNTTKALSVREIKAEHIGKLMTVRGIVTRCTEVKPMMIVA
TYTCDRCGAETYQPVNSMAFLPVTDCPSEDCRVNKAGGRLYLQTRGSKFVKFQEVKIQEH
SDQVPVGHIPRTLTIACRGEQTRNCQPGDHVLITGVFLPKQRHGYRQMQSGLLNETFMEA
HRIVALNKSDETESLSNDLTPEEIQELSRDDFYTRMASSLAPEIYGHLDVKKALLLLLIG
GVDKSPDGMKIRGNINILLMGDPGVAKSQLLGYISRIATRSQYTTGRGSSGVGLTAAVMK
DPHTGEMTLEGGALVLADQGVCCIDEFDKMAENDRTSIHEVMEQQTISIAKAGIMTTLNA
RVSILAAANPAYGRYNTKRSIEQNVQLPAALLSCFDLLWLIQDKPDRENDLRLAHHITFV
HSHGKQPPSNVEALDMNLVRRYINLCKRKNPTIPQDLTEYIVNAYVELRREARNNRDMTF
TSARNLLGILRLSTALARLRLASTVEKSDVAEALRLLEMSKDSLNQSTDQRTNVVQNISD
RIFAIIRELAGNQKTVKISDVMDRCTTKGYKPDQVDVCIEEYEELNVWQVNQTRTKITFI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
24 g6252.t1 CDD cd17758 MCM7 335 640 0.0
23 g6252.t1 Coils Coil Coil 720 720 -
21 g6252.t1 Gene3D G3DSA:3.30.1640.10 - 5 106 6.7E-10
22 g6252.t1 Gene3D G3DSA:2.40.50.140 - 149 288 5.1E-34
20 g6252.t1 Gene3D G3DSA:2.20.28.10 - 179 226 5.1E-34
19 g6252.t1 Gene3D G3DSA:3.40.50.300 - 320 646 3.1E-125
5 g6252.t1 PANTHER PTHR11630 DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER 40 700 1.4E-235
6 g6252.t1 PANTHER PTHR11630:SF26 DNA REPLICATION LICENSING FACTOR MCM7 40 700 1.4E-235
11 g6252.t1 PRINTS PR01663 Mini-chromosome maintenance (MCM) protein 7 signature 126 138 2.5E-25
7 g6252.t1 PRINTS PR01663 Mini-chromosome maintenance (MCM) protein 7 signature 164 175 2.5E-25
10 g6252.t1 PRINTS PR01663 Mini-chromosome maintenance (MCM) protein 7 signature 182 193 2.5E-25
9 g6252.t1 PRINTS PR01663 Mini-chromosome maintenance (MCM) protein 7 signature 199 211 2.5E-25
8 g6252.t1 PRINTS PR01663 Mini-chromosome maintenance (MCM) protein 7 signature 291 301 2.5E-25
12 g6252.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 372 387 3.2E-33
15 g6252.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 432 446 3.2E-33
14 g6252.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 460 473 3.2E-33
16 g6252.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 484 496 3.2E-33
13 g6252.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 511 519 3.2E-33
4 g6252.t1 Pfam PF14551 MCM N-terminal domain 11 139 2.4E-22
2 g6252.t1 Pfam PF17207 MCM OB domain 149 278 1.5E-34
3 g6252.t1 Pfam PF00493 MCM P-loop domain 322 540 2.7E-99
1 g6252.t1 Pfam PF17855 MCM AAA-lid domain 558 640 2.1E-21
27 g6252.t1 ProSitePatterns PS00847 MCM family signature. 440 448 -
28 g6252.t1 ProSiteProfiles PS50051 MCM family domain profile. 332 537 92.219
26 g6252.t1 SMART SM00350 mcm 145 642 3.5E-267
25 g6252.t1 SMART SM00382 AAA_5 373 526 1.0E-4
18 g6252.t1 SUPERFAMILY SSF50249 Nucleic acid-binding proteins 18 300 5.14E-64
17 g6252.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 342 639 6.63E-38

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:0042555 MCM complex CC
GO:0006260 DNA replication BP
GO:0006270 DNA replication initiation BP
GO:0032508 DNA duplex unwinding BP
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