General information for g1168.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as DNA replication licensing factor Mcm3.
Parent gene
- The parent gene g1168 is located on chr_3: 8459986..8460925 (+ 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 | g1168 | g1168.t2 | isoform | g1168.t2 | 8459986 | 8460925 |
| chr_3 | g1168 | g1168.t2 | exon | g1168.t2.exon1 | 8459986 | 8460925 |
| chr_3 | g1168 | g1168.t2 | cds | g1168.t2.CDS1 | 8460041 | 8460925 |
| chr_3 | g1168 | g1168.t2 | TTS | g1168.t2 | 8461031 | 8461031 |
| chr_3 | g1168 | g1168.t2 | TSS | g1168.t2 | NA | NA |
Sequences
>g1168.t2 Gene=g1168 Length=940
CAATCCAAAAGAGCAAGATGGAGAAGTTTTAACATGGGGCGATAGTACAGTCGATATGTT
GACAACTTTCAACACAGAGAACGAGAACAAAGAAACTGTAGTGTTTGAAAAATTTGATCC
ACTTTTACATGGTGCATCACGTACAGCAGCTGATCAAATTTTATCAGTTGATTTCATGAA
GAAATACATAAGCGTTGTTAAATGCATAAAACCAAAGCTTACAGAACAAGCATGTGAATT
AATTTCTAATGAATATTCTCGTTTACGCTCACAAGAATCTACTGAATCAGATGTTGCAAG
AACACAACCAGTCACCGCTCGTACACTTGAAACATTGATTCGTTTAGCAACAGCCCATGC
TAAAGCAAGAATGGCTAAAAATGTTGCACAACAAGATGCTAAAGCTGCGATTGAGTTAGT
TCAATTTGCATATTTCAAAAAAGTCCTTGAAAAAGAAAAGAAACAAAAACGTAAACGTAA
TGAAGGTGATGAAGAAGAATCAGATATGTCAGAAGATGAAGACACTCATAGCACAACTGT
TTCTACTCCGGCTCGAAGTGCTAAAAGAAGTAGAGTTGTTCATTATGCAACAGATGAAGA
AGATGAGGAAGCAATGTCTACAATGCAAACTGATACAAATGATATTACTACGCGTGATTC
AATTGTTACACCTCGAAGTTCTGAACAACAACCTTCAACATCAAGTGAACCGATTGTTGA
AAATATAAGTGATGCACGTTTAAACATCTTTAAAAATGGCTTACAAAAAGTATTCCGTGA
ATCACGTGACTCAAGTTTACCAGTCGAACGAATTGTCAACTACGTAAATCAAAATAGTGG
TGACATAGCATTCTCTCAAGGTGAAATTAAATCTGCATTAGAACGTATGACAAATGATAA
CCAAATTATGGTCGCTGATGATATTGTTTTCTTAATTTAA
>g1168.t2 Gene=g1168 Length=294
MLTTFNTENENKETVVFEKFDPLLHGASRTAADQILSVDFMKKYISVVKCIKPKLTEQAC
ELISNEYSRLRSQESTESDVARTQPVTARTLETLIRLATAHAKARMAKNVAQQDAKAAIE
LVQFAYFKKVLEKEKKQKRKRNEGDEEESDMSEDEDTHSTTVSTPARSAKRSRVVHYATD
EEDEEAMSTMQTDTNDITTRDSIVTPRSSEQQPSTSSEPIVENISDARLNIFKNGLQKVF
RESRDSSLPVERIVNYVNQNSGDIAFSQGEIKSALERMTNDNQIMVADDIVFLI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g1168.t2 | Coils | Coil | Coil | 128 | 148 | - |
| 6 | g1168.t2 | Gene3D | G3DSA:3.40.50.300 | - | 5 | 132 | 2.1E-23 |
| 4 | g1168.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 135 | 220 | - |
| 5 | g1168.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 190 | 220 | - |
| 2 | g1168.t2 | PANTHER | PTHR11630 | DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER | 10 | 288 | 1.6E-59 |
| 3 | g1168.t2 | PANTHER | PTHR11630:SF72 | DNA REPLICATION LICENSING FACTOR MCM3 | 10 | 288 | 1.6E-59 |
| 1 | g1168.t2 | Pfam | PF17855 | MCM AAA-lid domain | 39 | 123 | 1.3E-21 |
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.
