General information for g6299.t14
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as DNA replication licensing factor Mcm6.
Parent gene
- The parent gene g6299 is located on chr_2: 16029526..16031526 (- 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_2 | g6299 | g6299.t14 | isoform | g6299.t14 | 16028450 | 16030358 |
| chr_2 | g6299 | g6299.t14 | exon | g6299.t14.exon1 | 16028450 | 16029318 |
| chr_2 | g6299 | g6299.t14 | cds | g6299.t14.CDS1 | 16029191 | 16029318 |
| chr_2 | g6299 | g6299.t14 | exon | g6299.t14.exon2 | 16029404 | 16030358 |
| chr_2 | g6299 | g6299.t14 | cds | g6299.t14.CDS2 | 16029404 | 16030091 |
| chr_2 | g6299 | g6299.t14 | TSS | g6299.t14 | NA | NA |
| chr_2 | g6299 | g6299.t14 | TTS | g6299.t14 | NA | NA |
Sequences
>g6299.t14 Gene=g6299 Length=1824
AATGATGAAGTCAAGAAAGGAGTTTTATTGCAACTTTTTGGTGGAGTTGGGAAAACAACT
CATGAAAAGACTACACTTCGTGGTGATATCAATGTTTGTATTGTAGGCGATCCATCAACA
GCAAAATCTCAATTACTCAAACAAGTTGCAGACTTTTCACCTAGAGCAGTATACACTTCA
GGAAAAGCATCTTCGGCTGCTGGTTTAACAGCTGCTGTGGTCAGAGATGAGGAAAGTTTT
GATTTTGTTATTGAAGCTGGTGCTTTGATGTTGGCTGATAATGGAATTTGTTGTATTGAT
GAATTTGATAAAATGGATCCACGCGATCAAGTTGCAATTCACGAAGCTATGGAACAGCAG
ACAATTTCCATCGCAAAAGCAGGAGTTCGTGCTACACTAAACGCTCGAACGTCAATTTTA
GCTGCTGCAAATCCAATCAATGGTCGATATGATCGCTCAAAATCACTTCAACAAAATATT
ATGCTCTCTGCTCCAATTATGTCACGTTTTGATTTATTCTTTATTCTTGTTGATGAATGT
AATGAAATTGTTGATTATGCAATTGCTAGAAAAATTGTTGATCTTCATACAAATGCACAA
ACAACAACAATTGAACAAGTTTATCAACGTGAAGATGTGCTTCGTTATATCACATTCGCT
CGTCAATTTAAGCCAATGATTTCAAAAGAATCAATGAAGTTACTTGTTGAGAATTATAGT
CATCTAAGACAGAGAGATACTGGCAGCAGCAAAAATACATGGCGTATCACAGTTCGTCAA
CTTGAAAGTATGATTCGGTTGAGTGAAGCTCAAGCGAAAATGGAATGTTCAGGAGAAGTT
TTACCACGTCATGTTCATGAAGCATATCGACTTTTGAATAAATCAATTATACGTGTTGAG
CAACCGGACATTCATCTTGGTGATGATGAAAACATGATGGAAGTTGATGAAACACATTTG
ATGAATATAAAAATCTCTCAAATATGCTCATTCTTCATTTACGAGAAGAAGAATCAAAAT
GTATTGCCGCAGGCACAGACACTGAAGGTATCAAAAAGAGTGAGCTTGTACAATGGTATT
TAGAACAAATTCAAGATTTGCTTGAGTCAGAAGATGATTTAATTGAAAGAAAAATGCTGG
CCGAGCGACTAATTGATCGACTTATCACACATGATCAAGTGTTAATTCCACTTAAAACAA
CAGAACTCAAATCACAGAAAGGCAAAGTACCAACAACAGAAAGTGAAACTGAAGAAGATG
ATCCATTTTTAATGGTTCATCCAAATTATGTCATTGAAAAATAATTTTTCATTTCACATT
TATTAAGTTCAAGTTTCAATTTTTAATGTTAAGTTTCTAATTTCACATTTTCTTTTTATA
AAAATAGTGACAGCTCATAAATAGTAAATAATAAAATTTTCCATTTATTCTAAATTTAAA
GTTTCGACTTTATTTGTTGTTTTTGCTCTATATTCTCGTCATCAATTTGTATTAAAAATT
CTTTAATTTGTTTCTCATTATTTTCTTTCTTTTTGTTATTGAAAATAATATTGATAATAA
ACGGTTGGGAATAAATGCATCTTGAATGATCTCTTCTTTTTTTACACTTGCAACACATGT
TTTAAATAAATTTCTATAAAATTCTTAGACAGTGCCGCTAGTTAAAAGAGACAAATAATA
ACTGACTTAATTTGTTACAATTATGTTATTTTTGTTGCTTATTTGTTCATACGTCAGCGA
ATTCGTATTCATTAGCATAATCCATAAATTATATCAATGAATCATTTTTATAAAGTTTCT
GATGATGAATGAATTTTTTAAACA
>g6299.t14 Gene=g6299 Length=271
MLADNGICCIDEFDKMDPRDQVAIHEAMEQQTISIAKAGVRATLNARTSILAAANPINGR
YDRSKSLQQNIMLSAPIMSRFDLFFILVDECNEIVDYAIARKIVDLHTNAQTTTIEQVYQ
REDVLRYITFARQFKPMISKESMKLLVENYSHLRQRDTGSSKNTWRITVRQLESMIRLSE
AQAKMECSGEVLPRHVHEAYRLLNKSIIRVEQPDIHLGDDENMMEVDETHLMNIKISQIC
SFFIYEKKNQNVLPQAQTLKVSKRVSLYNGI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g6299.t14 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 212 | 1.3E-77 |
| 3 | g6299.t14 | PANTHER | PTHR11630:SF93 | DNA HELICASE | 1 | 229 | 7.1E-114 |
| 4 | g6299.t14 | PANTHER | PTHR11630 | DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER | 1 | 229 | 7.1E-114 |
| 5 | g6299.t14 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 26 | 39 | 2.2E-15 |
| 7 | g6299.t14 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 50 | 62 | 2.2E-15 |
| 6 | g6299.t14 | PRINTS | PR01657 | Mini-chromosome maintenance (MCM) protein family signature | 77 | 85 | 2.2E-15 |
| 2 | g6299.t14 | Pfam | PF00493 | MCM P-loop domain | 1 | 107 | 1.9E-50 |
| 1 | g6299.t14 | Pfam | PF17855 | MCM AAA-lid domain | 124 | 207 | 1.3E-27 |
| 10 | g6299.t14 | ProSitePatterns | PS00847 | MCM family signature. | 6 | 14 | - |
| 12 | g6299.t14 | ProSiteProfiles | PS50051 | MCM family domain profile. | 1 | 103 | 48.933 |
| 11 | g6299.t14 | SMART | SM00350 | mcm | 1 | 208 | 1.8E-19 |
| 8 | g6299.t14 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 2 | 225 | 5.13E-28 |
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:0006260 | DNA replication | BP |
| GO:0032508 | DNA duplex unwinding | BP |
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.
