General information for g12531.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as DNA replication licensing factor Mcm2.
Parent gene
- The parent gene g12531 is located on chr_1: 24273666..24274364 (- 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_1 | g12531 | g12531.t2 | TTS | g12531.t2 | 24271272 | 24271272 |
| chr_1 | g12531 | g12531.t2 | isoform | g12531.t2 | 24271421 | 24271908 |
| chr_1 | g12531 | g12531.t2 | exon | g12531.t2.exon1 | 24271421 | 24271908 |
| chr_1 | g12531 | g12531.t2 | cds | g12531.t2.CDS1 | 24271421 | 24271837 |
| chr_1 | g12531 | g12531.t2 | TSS | g12531.t2 | 24272363 | 24272363 |
Sequences
>g12531.t2 Gene=g12531 Length=488
AATTGCGTCAAGAGTCGTTAGCAACAGGTTCTTTACCTATCACTGTTCGTCACATTGAAT
CAGTAATTCGAATGGCTGAAGCACATGCTCGAATGCATTTGAGAGACACAGTTCAAGATG
TTGATGTCAATATGGCAATTCGAATGATGCTTGAAAGTTTCATTGCCGCTCAAAAGTTCT
CGGTCATGAAAAAGATGCAGGTCACATTCCAAAGATATTTGACATTCCAAAAAGATTATT
CAGAGTTGCTCTTCTTCATTCTTCGTCAACTTACACTCGATCAACTTGCATACATTCGTT
ACAAGCAAGGACCATCAGCAACTCATGTCGAAATTTTGGAAAAAGATTTACTCGAACGTG
CTAAACAAATTGATATTCACAATTTATCCAAATTTTATGAGAGTGAAATTTTCAAGAACA
ATGGTTTCTCATATGATAGCAAACGTAAGACAATTCTACAAGTTGTGCCTGAAGCAGCTA
CAGTTTAA
>g12531.t2 Gene=g12531 Length=138
MAEAHARMHLRDTVQDVDVNMAIRMMLESFIAAQKFSVMKKMQVTFQRYLTFQKDYSELL
FFILRQLTLDQLAYIRYKQGPSATHVEILEKDLLERAKQIDIHNLSKFYESEIFKNNGFS
YDSKRKTILQVVPEAATV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12531.t2 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 48 | 3.0e-05 |
| 2 | g12531.t2 | PANTHER | PTHR11630:SF101 | DNA HELICASE | 1 | 123 | 0.0e+00 |
| 3 | g12531.t2 | PANTHER | PTHR11630 | DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER | 1 | 123 | 0.0e+00 |
| 1 | g12531.t2 | Pfam | PF17855 | MCM AAA-lid domain | 1 | 30 | 4.6e-06 |
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: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.
