General information for g658.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as DNA replication licensing factor Mcm5.
Parent gene
- The parent gene g658 is located on chr_3: 5032700..5033956 (+ strand)
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.t1 | TSS | g658.t1 | 5031153 | 5031153 |
| chr_3 | g658 | g658.t1 | isoform | g658.t1 | 5031371 | 5033757 |
| chr_3 | g658 | g658.t1 | exon | g658.t1.exon1 | 5031371 | 5031528 |
| chr_3 | g658 | g658.t1 | cds | g658.t1.CDS1 | 5031371 | 5031528 |
| chr_3 | g658 | g658.t1 | exon | g658.t1.exon2 | 5031592 | 5031637 |
| chr_3 | g658 | g658.t1 | cds | g658.t1.CDS2 | 5031592 | 5031637 |
| chr_3 | g658 | g658.t1 | exon | g658.t1.exon3 | 5031692 | 5032017 |
| chr_3 | g658 | g658.t1 | cds | g658.t1.CDS3 | 5031692 | 5032017 |
| chr_3 | g658 | g658.t1 | exon | g658.t1.exon4 | 5032078 | 5032640 |
| chr_3 | g658 | g658.t1 | cds | g658.t1.CDS4 | 5032078 | 5032640 |
| chr_3 | g658 | g658.t1 | exon | g658.t1.exon5 | 5032700 | 5033757 |
| chr_3 | g658 | g658.t1 | cds | g658.t1.CDS5 | 5032700 | 5033757 |
| chr_3 | g658 | g658.t1 | TTS | g658.t1 | 5033957 | 5033957 |
Sequences
>g658.t1 Gene=g658 Length=2151
ATGGAGGGCTTTGATGATGCTGGAATATTCTTTTCTGATAATTTTGGCGGTGGAGGTGAT
GAGCAAGATGCAGGAATCATCAATTTGCAACAAGTCAAGAAGAAATTCAAAGATTTTATT
CGGACATTTAATGAAGACCATTTTCATTATAAATATCGTGATGCATTAAAAAACAATTAT
TTGCTCGGGAAATTCTTTTTAGAAAAACAACCGTCTGAACATTTACAAATTTTCGAGGAA
GCAGCTAAAGAAGTTGCCGATGAAATCACTACACCAAGACCTGATAATGAAGAAGTACAA
GATATTCAAATTCTCATCAATTCAAATACAAATCCAACAAATATTCGTGACCTTAAATCC
GAGATGGTTTCAAAATTGGTAAAAATATCAGGTGTAATTATCTCTGCATCAGGGATCAAA
GCTAAAACAACGAAAATCACTATTCAATGTCGTTCATGCAACAATACAATGCCAAATTTA
ACAGTTAATCCAGGTTTAGAAGGATATGCCTTACCACGAAAATGTAACACTGAACAAGCA
GGTCGACCGAAATGTCCACTTGATCCTTTTTTCATCATGCCAGACAAATGTAAATGTGTC
GATTTCCAAACACTAAAACTTCAAGAATTGCCAGATTCTGTGCCACAAGGTGAAATTCCA
CGACATATGCAACTCTTCTGCGATCGTTCTTTATGTGAACGTGTTGTGCCTGGCAATCGT
GTTTTGATTCAAGGAATTTATTCGATCAAGAAAGTTTCAGGAGGAAAATCAAAAAGTGGA
AATGATACACATAAAGCAGTAGTTGGTGTTCGTGCTCCATACATGCGAGTTGTTGGTATC
AAAGTTGATACTGAAATAGGATCAATATCTCGCTATAGCAACATTACTAGTGATGAAGAA
GCTGCATTCCGTAAGTTAGCAGCAATGCCTGATATTTATGAAAAATTAGCAAAGAGTATA
GCACCAAGTATTTATGGATCAATGGACGTAAAAAAAGCAATTGTTTGCTTACTCTTTGGA
GGATCAAGAAAAAAATTACCTGATGGCTTATTAAGAAGAGGAGATATCAATGTTTTATGT
CTTGGTGATCCTGGAACTGCAAAATCACAATTACTTAAATTTGTTGAAAAAGTTTCCCCA
ATTGGAGTGTATACTTCAGGCAAAGGTTCAAGTGCCGCAGGTTTAACTGCTTCAGTCATG
CGTGATCCATCAACAAGAAATTTCGTAATGGAAGGTGGTGCTATGGTTCTTGCGGATGGT
GGTGTTGTGTGTATTGACGAATTCGATAAAATGAAAGAAGATGATCGTGTTGCTATTCAT
GAAGCTATGGAACAAGGAACAATTTCACTTGCAAAAGCAGGCATTACTACGACATTAAAT
TCACGCTGCTCTGTTTTTGCTGCTGCCAATTCAATTTTTGGTCGATGGGATGATACAAAA
GGAGAAGAGAATATTGATTTTATGCCAACAATTTTGTCACGTTTCGATATGATTTTCATT
ATTAAAGATGTTCATGATCAAACGCGTGATATCACTTTAGCGAAACACGTCATCAATGTA
CATTTAAATGCTAATAAAGCAACAACTGTCGAACAAGAGGGCGAAATTCCGTTAAATGTT
TTGAAAAAATATATTCATTATTGTCGCACTCATTGTGGACCACGATTGAGTCAAGAAGCT
GGAGAAAAATTACGCAGTCGTTATGTGTTAATGAGATCAGGTGCAAATCAACAAGAAAAA
GCAGCTGATCGTCGTTTGACAATTCCAATTACTGTACGACAGCTTGAAGCCATCATTCGT
ATATCGGAAGCGTTGGCAAAACTTCAATTGAAACCATTTGCGACAGACGAACATGTCAAT
GAAGCATTACGCTTATTCCAAGTGTCAACATTAGAGGCAGCTACATCAGGAACTTTGGCA
GGTGTTGAAGGATTTACGACCGAAGAAGATCACGATATGCTCAATCGAATCGAAAAGCAA
TTAAAGCGTCGTTTTGCAATCGGCTCACAAGTCTCAGAGCAAAATATCATTCAAGATTTT
GTAAGACAAAAATATCCTGAACGTGCTATAATGAAGGTCATTACCACAATGATTCGACGC
GGTGAATTGCAACATCGTATGCAAAGAAAAATGCTATATCGTTTAGCTTAA
>g658.t1 Gene=g658 Length=716
MEGFDDAGIFFSDNFGGGGDEQDAGIINLQQVKKKFKDFIRTFNEDHFHYKYRDALKNNY
LLGKFFLEKQPSEHLQIFEEAAKEVADEITTPRPDNEEVQDIQILINSNTNPTNIRDLKS
EMVSKLVKISGVIISASGIKAKTTKITIQCRSCNNTMPNLTVNPGLEGYALPRKCNTEQA
GRPKCPLDPFFIMPDKCKCVDFQTLKLQELPDSVPQGEIPRHMQLFCDRSLCERVVPGNR
VLIQGIYSIKKVSGGKSKSGNDTHKAVVGVRAPYMRVVGIKVDTEIGSISRYSNITSDEE
AAFRKLAAMPDIYEKLAKSIAPSIYGSMDVKKAIVCLLFGGSRKKLPDGLLRRGDINVLC
LGDPGTAKSQLLKFVEKVSPIGVYTSGKGSSAAGLTASVMRDPSTRNFVMEGGAMVLADG
GVVCIDEFDKMKEDDRVAIHEAMEQGTISLAKAGITTTLNSRCSVFAAANSIFGRWDDTK
GEENIDFMPTILSRFDMIFIIKDVHDQTRDITLAKHVINVHLNANKATTVEQEGEIPLNV
LKKYIHYCRTHCGPRLSQEAGEKLRSRYVLMRSGANQQEKAADRRLTIPITVRQLEAIIR
ISEALAKLQLKPFATDEHVNEALRLFQVSTLEAATSGTLAGVEGFTTEEDHDMLNRIEKQ
LKRRFAIGSQVSEQNIIQDFVRQKYPERAIMKVITTMIRRGELQHRMQRKMLYRLA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 21 | g658.t1 | CDD | cd17756 | MCM5 | 315 | 629 | 0.0 |
| 20 | g658.t1 | Gene3D | G3DSA:2.40.50.140 | - | 115 | 258 | 1.6E-39 |
| 19 | g658.t1 | Gene3D | G3DSA:2.20.28.10 | - | 145 | 196 | 1.6E-39 |
| 18 | g658.t1 | Gene3D | G3DSA:3.40.50.300 | - | 296 | 636 | 3.2E-134 |
| 4 | g658.t1 | PANTHER | PTHR11630:SF42 | DNA REPLICATION LICENSING FACTOR MCM5 | 55 | 656 | 2.1E-215 |
| 5 | g658.t1 | PANTHER | PTHR11630 | DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER | 55 | 656 | 2.1E-215 |
| 12 | g658.t1 | PRINTS | PR01661 | Mini-chromosome maintenance (MCM) protein 5 signature | 116 | 131 | 1.5E-35 |
| 13 | g658.t1 | PRINTS | PR01661 | Mini-chromosome maintenance (MCM) protein 5 signature | 142 | 154 | 1.5E-35 |
| 11 | g658.t1 | PRINTS | PR01661 | Mini-chromosome maintenance (MCM) protein 5 signature | 271 | 283 | 1.5E-35 |
| 10 | g658.t1 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 353 | 368 | 9.4E-31 |
| 8 | g658.t1 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 413 | 427 | 9.4E-31 |
| 9 | g658.t1 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 441 | 454 | 9.4E-31 |
| 7 | g658.t1 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 465 | 477 | 9.4E-31 |
| 6 | g658.t1 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 491 | 499 | 9.4E-31 |
| 14 | g658.t1 | PRINTS | PR01661 | Mini-chromosome maintenance (MCM) protein 5 signature | 548 | 563 | 1.5E-35 |
| 15 | g658.t1 | PRINTS | PR01661 | Mini-chromosome maintenance (MCM) protein 5 signature | 624 | 641 | 1.5E-35 |
| 2 | g658.t1 | Pfam | PF17207 | MCM OB domain | 114 | 250 | 1.7E-37 |
| 3 | g658.t1 | Pfam | PF00493 | MCM P-loop domain | 300 | 521 | 1.7E-98 |
| 1 | g658.t1 | Pfam | PF17855 | MCM AAA-lid domain | 540 | 629 | 5.8E-29 |
| 22 | g658.t1 | ProSitePatterns | PS00847 | MCM family signature. | 421 | 429 | - |
| 24 | g658.t1 | ProSiteProfiles | PS50051 | MCM family domain profile. | 312 | 517 | 91.596 |
| 23 | g658.t1 | SMART | SM00350 | mcm | 111 | 631 | 7.1E-287 |
| 17 | g658.t1 | SUPERFAMILY | SSF50249 | Nucleic acid-binding proteins | 35 | 258 | 4.11E-52 |
| 16 | g658.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 322 | 632 | 1.52E-37 |
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
- This transcript has been annotated with K02209 (DNA replication licensing factor MCM5)
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.
