Gene loci information

Transcript annotation

  • This transcript has been annotated as DNA replication licensing factor Mcm3.

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 g1168 g1168.t1 TSS g1168.t1 8458274 8458274
chr_3 g1168 g1168.t1 isoform g1168.t1 8458365 8460925
chr_3 g1168 g1168.t1 exon g1168.t1.exon1 8458365 8458430
chr_3 g1168 g1168.t1 cds g1168.t1.CDS1 8458365 8458430
chr_3 g1168 g1168.t1 exon g1168.t1.exon2 8458484 8459922
chr_3 g1168 g1168.t1 cds g1168.t1.CDS2 8458484 8459922
chr_3 g1168 g1168.t1 exon g1168.t1.exon3 8459986 8460925
chr_3 g1168 g1168.t1 cds g1168.t1.CDS3 8459986 8460925
chr_3 g1168 g1168.t1 TTS g1168.t1 8461031 8461031

Sequences

>g1168.t1 Gene=g1168 Length=2445
ATGGTTGATAATGAACAACATTTGCGTGATCTTCAACGTGAATATCTTGATTTCCTTGAT
GATGAGGAGGATCAAGGAATTTACACAAGTCAAGTAAAGACAATGATTTCAGAAGAAAGA
AAACGATTGCTCGTAAATATTAATGATCTGAGAAGAAAAAATCCAGCCAGAGCTCAAGCT
TTACTCAATAATGCTTTTGAGGAACAACATGCATTTTCATTGGCACTTAAAGATTTTGTT
CAATCAATTCAACCATCATATGCAAAGCAACACGAAGAGTTTCATGTTGCTTTTGAGGGA
AGTTTCGGTAATAAACACGTTACACCGCGTCAATTGACTTCTCGATATTTGGGCAATCTT
GTCTGTGTTGAAGGCATTGTTGTGAAAGTATCTCTGGTTCGTCCTAAAGTAGTTCGTAGT
GTTCATTATTGTCCAGCAACGAACAAGTTTATGGAGCGTAAATACACTGATTCAACAAGT
TTTGAGGCAGTTCCTTCAAGTAATGTTTATCCAACAAAAGATGAAGATGGAAATTTACTT
GAAACTGAATATGGGTTGAGTGTTTATAAAGATCATCAGTCAATAAGTATTCAAGAGATG
CCAGAAAAAGCACCAGCTGGTCAACTTCCACGTTCTGTAGATATTGTCTGCGACGATGAT
CTTGTTGATAAATGTAAGCCAGGAGATCGTGTTCAAATTGTAGGCAATTATCGATGCATG
CCTGCTAAATATGGCGGTTATACAAATGGAGTTTTTCGAACTGTTCTCATTGCTAATCAT
ATTTCATTATTGAATAAAGAATCAACATCTAACATCGATCGTGAAGAAATCAATATATGC
AAAAAGTTAGCAAAACGAAAAGATATTTTTGATTTGTTGGCAAAAAGTTTAGCGCCATCA
ATTCATGGTCATGAATTCGTAAAAAAAGCAATCTTGTGTCTTCTTCTTGGTGGCGTTGAG
AAAAATTTACCTAATGGAACTAGATTAAGAGGTGATATCAATGTGCTTCTTATCGGAGAT
CCTTCAGTTGCAAAATCACAATTGCTTCGATATGTTTTACATACAGCACCGAGAGCAATA
CCAACGACTGGTCGTGGTTCATCAGGCGTAGGTTTAACTGCAGCTGTCACAAGTGATCAA
GAAACAGGCGAGAGAAGATTAGAAGCTGGTGCTATGGTTCTCGCAGATCGAGGAGTTGTA
TGCATTGATGAATTTGATAAAATGACAGATATTGATCGTACAGCAATCCATGAAGTTATG
GAACAGGGACGAGTTACAATTTCAAAAGCTGGTATTCACGCTTCACTTAATGCAAGATGC
TCCGTTTTAGCTGCAGCAAATCCTGTTTATGGTCGATATGATCAATATAAAACACCAATG
GAAAATATTGGAATGCAAGATTCATTGCTATCTCGTTTTGATCTGTTGTTTGTCCTTCTT
GATACAATTGATAGTGATTTGGATAATGTAATCTCAGACCATGTCGTTAGAATGCATCGT
TATCGCAATCCAAAAGAGCAAGATGGAGAAGTTTTAACATGGGGCGATAGTACAGTCGAT
ATGTTGACAACTTTCAACACAGAGAACGAGAACAAAGAAACTGTAGTGTTTGAAAAATTT
GATCCACTTTTACATGGTGCATCACGTACAGCAGCTGATCAAATTTTATCAGTTGATTTC
ATGAAGAAATACATAAGCGTTGTTAAATGCATAAAACCAAAGCTTACAGAACAAGCATGT
GAATTAATTTCTAATGAATATTCTCGTTTACGCTCACAAGAATCTACTGAATCAGATGTT
GCAAGAACACAACCAGTCACCGCTCGTACACTTGAAACATTGATTCGTTTAGCAACAGCC
CATGCTAAAGCAAGAATGGCTAAAAATGTTGCACAACAAGATGCTAAAGCTGCGATTGAG
TTAGTTCAATTTGCATATTTCAAAAAAGTCCTTGAAAAAGAAAAGAAACAAAAACGTAAA
CGTAATGAAGGTGATGAAGAAGAATCAGATATGTCAGAAGATGAAGACACTCATAGCACA
ACTGTTTCTACTCCGGCTCGAAGTGCTAAAAGAAGTAGAGTTGTTCATTATGCAACAGAT
GAAGAAGATGAGGAAGCAATGTCTACAATGCAAACTGATACAAATGATATTACTACGCGT
GATTCAATTGTTACACCTCGAAGTTCTGAACAACAACCTTCAACATCAAGTGAACCGATT
GTTGAAAATATAAGTGATGCACGTTTAAACATCTTTAAAAATGGCTTACAAAAAGTATTC
CGTGAATCACGTGACTCAAGTTTACCAGTCGAACGAATTGTCAACTACGTAAATCAAAAT
AGTGGTGACATAGCATTCTCTCAAGGTGAAATTAAATCTGCATTAGAACGTATGACAAAT
GATAACCAAATTATGGTCGCTGATGATATTGTTTTCTTAATTTAA

>g1168.t1 Gene=g1168 Length=814
MVDNEQHLRDLQREYLDFLDDEEDQGIYTSQVKTMISEERKRLLVNINDLRRKNPARAQA
LLNNAFEEQHAFSLALKDFVQSIQPSYAKQHEEFHVAFEGSFGNKHVTPRQLTSRYLGNL
VCVEGIVVKVSLVRPKVVRSVHYCPATNKFMERKYTDSTSFEAVPSSNVYPTKDEDGNLL
ETEYGLSVYKDHQSISIQEMPEKAPAGQLPRSVDIVCDDDLVDKCKPGDRVQIVGNYRCM
PAKYGGYTNGVFRTVLIANHISLLNKESTSNIDREEINICKKLAKRKDIFDLLAKSLAPS
IHGHEFVKKAILCLLLGGVEKNLPNGTRLRGDINVLLIGDPSVAKSQLLRYVLHTAPRAI
PTTGRGSSGVGLTAAVTSDQETGERRLEAGAMVLADRGVVCIDEFDKMTDIDRTAIHEVM
EQGRVTISKAGIHASLNARCSVLAAANPVYGRYDQYKTPMENIGMQDSLLSRFDLLFVLL
DTIDSDLDNVISDHVVRMHRYRNPKEQDGEVLTWGDSTVDMLTTFNTENENKETVVFEKF
DPLLHGASRTAADQILSVDFMKKYISVVKCIKPKLTEQACELISNEYSRLRSQESTESDV
ARTQPVTARTLETLIRLATAHAKARMAKNVAQQDAKAAIELVQFAYFKKVLEKEKKQKRK
RNEGDEEESDMSEDEDTHSTTVSTPARSAKRSRVVHYATDEEDEEAMSTMQTDTNDITTR
DSIVTPRSSEQQPSTSSEPIVENISDARLNIFKNGLQKVFRESRDSSLPVERIVNYVNQN
SGDIAFSQGEIKSALERMTNDNQIMVADDIVFLI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
23 g1168.t1 CDD cd17754 MCM3 292 645 0.0
22 g1168.t1 Coils Coil Coil 648 668 -
20 g1168.t1 Gene3D G3DSA:3.30.1640.10 - 5 105 2.9E-23
21 g1168.t1 Gene3D G3DSA:2.40.50.140 - 113 261 3.1E-52
19 g1168.t1 Gene3D G3DSA:2.20.28.10 - 136 190 3.1E-52
28 g1168.t1 MobiDBLite mobidb-lite consensus disorder prediction 655 740 -
27 g1168.t1 MobiDBLite mobidb-lite consensus disorder prediction 710 740 -
5 g1168.t1 PANTHER PTHR11630 DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER 4 807 0.0
6 g1168.t1 PANTHER PTHR11630:SF72 DNA REPLICATION LICENSING FACTOR MCM3 4 807 0.0
12 g1168.t1 PRINTS PR01659 Mini-chromosome maintenance (MCM) protein 3 signature 182 196 6.1E-30
15 g1168.t1 PRINTS PR01659 Mini-chromosome maintenance (MCM) protein 3 signature 208 220 6.1E-30
11 g1168.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 330 345 1.2E-32
10 g1168.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 390 404 1.2E-32
8 g1168.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 418 431 1.2E-32
7 g1168.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 442 454 1.2E-32
14 g1168.t1 PRINTS PR01659 Mini-chromosome maintenance (MCM) protein 3 signature 458 468 6.1E-30
9 g1168.t1 PRINTS PR01657 Mini-chromosome maintenance (MCM) protein family signature 469 477 1.2E-32
13 g1168.t1 PRINTS PR01659 Mini-chromosome maintenance (MCM) protein 3 signature 491 501 6.1E-30
16 g1168.t1 PRINTS PR01659 Mini-chromosome maintenance (MCM) protein 3 signature 634 649 6.1E-30
4 g1168.t1 Pfam PF14551 MCM N-terminal domain 13 99 6.2E-12
2 g1168.t1 Pfam PF17207 MCM OB domain 110 241 8.0E-33
3 g1168.t1 Pfam PF00493 MCM P-loop domain 280 499 1.7E-96
1 g1168.t1 Pfam PF17855 MCM AAA-lid domain 559 643 6.6E-21
26 g1168.t1 ProSitePatterns PS00847 MCM family signature. 398 406 -
29 g1168.t1 ProSiteProfiles PS50051 MCM family domain profile. 289 495 94.824
25 g1168.t1 SMART SM00350 mcm 105 647 2.0E-290
24 g1168.t1 SMART SM00382 AAA_5 331 484 2.7E-4
18 g1168.t1 SUPERFAMILY SSF50249 Nucleic acid-binding proteins 12 258 1.22E-60
17 g1168.t1 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 299 658 1.04E-34

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

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