General information for g658.t8
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.t8 | isoform | g658.t8 | 5032700 | 5033956 |
| chr_3 | g658 | g658.t8 | exon | g658.t8.exon1 | 5032700 | 5033956 |
| chr_3 | g658 | g658.t8 | cds | g658.t8.CDS1 | 5032804 | 5033757 |
| chr_3 | g658 | g658.t8 | TTS | g658.t8 | 5033957 | 5033957 |
| chr_3 | g658 | g658.t8 | TSS | g658.t8 | NA | NA |
Sequences
>g658.t8 Gene=g658 Length=1257
GAACTGCAAAATCACAATTACTTAAATTTGTTGAAAAAGTTTCCCCAATTGGAGTGTATA
CTTCAGGCAAAGGTTCAAGTGCCGCAGGTTTAACTGCTTCAGTCATGCGTGATCCATCAA
CAAGAAATTTCGTAATGGAAGGTGGTGCTATGGTTCTTGCGGATGGTGGTGTTGTGTGTA
TTGACGAATTCGATAAAATGAAAGAAGATGATCGTGTTGCTATTCATGAAGCTATGGAAC
AAGGAACAATTTCACTTGCAAAAGCAGGCATTACTACGACATTAAATTCACGCTGCTCTG
TTTTTGCTGCTGCCAATTCAATTTTTGGTCGATGGGATGATACAAAAGGAGAAGAGAATA
TTGATTTTATGCCAACAATTTTGTCACGTTTCGATATGATTTTCATTATTAAAGATGTTC
ATGATCAAACGCGTGATATCACTTTAGCGAAACACGTCATCAATGTACATTTAAATGCTA
ATAAAGCAACAACTGTCGAACAAGAGGGCGAAATTCCGTTAAATGTTTTGAAAAAATATA
TTCATTATTGTCGCACTCATTGTGGACCACGATTGAGTCAAGAAGCTGGAGAAAAATTAC
GCAGTCGTTATGTGTTAATGAGATCAGGTGCAAATCAACAAGAAAAAGCAGCTGATCGTC
GTTTGACAATTCCAATTACTGTACGACAGCTTGAAGCCATCATTCGTATATCGGAAGCGT
TGGCAAAACTTCAATTGAAACCATTTGCGACAGACGAACATGTCAATGAAGCATTACGCT
TATTCCAAGTGTCAACATTAGAGGCAGCTACATCAGGAACTTTGGCAGGTGTTGAAGGAT
TTACGACCGAAGAAGATCACGATATGCTCAATCGAATCGAAAAGCAATTAAAGCGTCGTT
TTGCAATCGGCTCACAAGTCTCAGAGCAAAATATCATTCAAGATTTTGTAAGACAAAAAT
ATCCTGAACGTGCTATAATGAAGGTCATTACCACAATGATTCGACGCGGTGAATTGCAAC
ATCGTATGCAAAGAAAAATGCTATATCGTTTAGCTTAAAATATTCATGTGAGTTTACGCG
CAACGCTTCACACATTTTTCACTTTAAGTTTCTTTTTTCTTTTTATAATATTTAGGATAG
TTTTTCTCATTTGAACATTTTTATTGCATTTTCAACAATAGTTCTATTAGTTTCTGTTTT
CATTTAAGATGATACCTAATAAACGTAAAATAAAAGTTAATCAACATCAGTAATAAA
>g658.t8 Gene=g658 Length=317
MRDPSTRNFVMEGGAMVLADGGVVCIDEFDKMKEDDRVAIHEAMEQGTISLAKAGITTTL
NSRCSVFAAANSIFGRWDDTKGEENIDFMPTILSRFDMIFIIKDVHDQTRDITLAKHVIN
VHLNANKATTVEQEGEIPLNVLKKYIHYCRTHCGPRLSQEAGEKLRSRYVLMRSGANQQE
KAADRRLTIPITVRQLEAIIRISEALAKLQLKPFATDEHVNEALRLFQVSTLEAATSGTL
AGVEGFTTEEDHDMLNRIEKQLKRRFAIGSQVSEQNIIQDFVRQKYPERAIMKVITTMIR
RGELQHRMQRKMLYRLA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g658.t8 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 237 | 2.3E-87 |
| 3 | g658.t8 | PANTHER | PTHR11630:SF42 | DNA REPLICATION LICENSING FACTOR MCM5 | 1 | 257 | 2.8E-96 |
| 4 | g658.t8 | PANTHER | PTHR11630 | DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER | 1 | 257 | 2.8E-96 |
| 6 | g658.t8 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 14 | 28 | 7.3E-22 |
| 8 | g658.t8 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 42 | 55 | 7.3E-22 |
| 7 | g658.t8 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 66 | 78 | 7.3E-22 |
| 5 | g658.t8 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 92 | 100 | 7.3E-22 |
| 9 | g658.t8 | PRINTS | PR01661 | Mini-chromosome maintenance (MCM) protein 5 signature | 149 | 164 | 8.5E-15 |
| 10 | g658.t8 | PRINTS | PR01661 | Mini-chromosome maintenance (MCM) protein 5 signature | 225 | 242 | 8.5E-15 |
| 2 | g658.t8 | Pfam | PF00493 | MCM P-loop domain | 1 | 122 | 3.5E-54 |
| 1 | g658.t8 | Pfam | PF17855 | MCM AAA-lid domain | 141 | 230 | 1.5E-29 |
| 13 | g658.t8 | ProSitePatterns | PS00847 | MCM family signature. | 22 | 30 | - |
| 15 | g658.t8 | ProSiteProfiles | PS50051 | MCM family domain profile. | 1 | 118 | 52.657 |
| 14 | g658.t8 | SMART | SM00350 | mcm | 1 | 232 | 5.0E-25 |
| 11 | g658.t8 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 2 | 233 | 1.23E-27 |
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 gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
