General information for g2764.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cell cycle checkpoint protein RAD17.
Parent gene
- The parent gene g2764 is located on chr_3: 20070377..20072084 (+ 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 | g2764 | g2764.t1 | isoform | g2764.t1 | 20070313 | 20072084 |
| chr_3 | g2764 | g2764.t1 | exon | g2764.t1.exon1 | 20070313 | 20070321 |
| chr_3 | g2764 | g2764.t1 | cds | g2764.t1.CDS1 | 20070313 | 20070321 |
| chr_3 | g2764 | g2764.t1 | exon | g2764.t1.exon2 | 20070377 | 20071185 |
| chr_3 | g2764 | g2764.t1 | cds | g2764.t1.CDS2 | 20070377 | 20071185 |
| chr_3 | g2764 | g2764.t1 | exon | g2764.t1.exon3 | 20071259 | 20072084 |
| chr_3 | g2764 | g2764.t1 | cds | g2764.t1.CDS3 | 20071259 | 20072084 |
| chr_3 | g2764 | g2764.t1 | TTS | g2764.t1 | 20072145 | 20072145 |
| chr_3 | g2764 | g2764.t1 | TSS | g2764.t1 | NA | NA |
Sequences
>g2764.t1 Gene=g2764 Length=1644
ATGTCAGAAGATTGGTTTAAACCAGCTTTCATTGAAAATGATATCAAGCAGTGTTTGTCG
GCTAAAACGGAAAAAGAGATTAAATCAAAGGCGCGAAAAAAAAATTCAGAAACAAATGAA
GAGAGTTTAATAAGAAAGAGTAAATCATTAGAGCAAACAAGTAATGCAGTGGACAAAAAA
AGAAGATCAGGTAATGATATAGAAAATGAGGATCAAAATAAAAATAAACAAAAGGTGCCA
AAAAAGAGAAAGAAAGAAATTGTTGCACAATCGCAGCCGACTATTGAGATAAGTGAAGTG
AAATGGTTAGATATTTTTACGCCTAAAACAATTAATGAGCTTCTCGTTCATCCAAAGAAA
ATAGAAGAAATAAAACACTGGTTTCAACTCAATAGAAAGCATCCTGATGATCATCACATT
CTTTTATTAAGCGGACCAGCTGGTTGTGGCAAGCAAACTTGCACTAAAATGATTGCAAGT
GAAGAAGGATTCAATATTTGTGAATTTGAATCGAGATTGGATATTAGTGATGATCTTGTA
AAAAATGATTATAATGTTCCATATGAAAATCAAAAAGAAAAATTTGAAAATTTTCTTCTC
ACATCAACCCGCTTTCAATCACTCTTTACAACCAAAAGTCGATTATTGATTGTCAAAGAT
TTTCCCAATGTTTTTTTAATAAAAGAAGGAAATGAAGAATTTTGGTCTAGTTTGAGAAAA
TTCAAGAAATATTCTAATGCGCCAGTAGTCTTCATTATAACCGAATCAAAAACTAAAACT
TTGGACCTTGAATACTTTCTTTTTCCAGAAAATATTCGCAAGGAACTCGGAATTTCTAAA
ATAAGTATGAATCCAATTACAACAACAATGCTTAAAAAAGCAATGAAGCAGATATGTACT
ACCTTGAGTAATAACGAACATTTTAAAATACCGACTCAAGAAACTATCGACAATATTGCA
TTGCAATCACTAGGAGATATTCAGGCAGCTATTTATAATTTGCAACTAGCTTGTCAACAA
GGACCACAAAGTCTTAAATCAAAAAAATCTGACAAAAAACAAAATGTACCCGTAAAGAAG
GCAAAGAAGGAAATCGGTCGTGATGAACAAATTGATATCTTTCATGGTCTAGGAAAAGTT
ATGTATCCTAAATTAGAAATGGATTCAATGACTGAGCGAATGAAGTTAACAAATAATCCT
GAGAATGTTGCGGAATTATTTTATGATCGTTTTAAAACTTTTACTGAATTGCTCTACTCG
AATTTTTTAAAGAATTTCACAGAAATAAAAGGAGCTGCAGCCGTCTCTGATACTTTATCA
ATGTCAAATATTTTTCAAACTGAGTATAGACAAGCAGAAAATTTGCATAAAATAAGTCTC
TGTATGGCTATTCGAAGTGCAATGGTTCATAATTCAGAAGGAGCACCAAGTGGATTTCGA
CCAGTGAAAGGTTTTGCTAGTAAAAAATTCAAGAATATGGGAATGAATAACTTAGAAGAG
TATAAAAAACAACGTATTGGATTAAATGGTGGTCATCGTGTTACAAAAAAGGACTTTTTT
GCAGATTATAAAATGTTTTCATCGATTATAAAACCAGAAGAAGAAGAGTCTGATGAAAAT
GAAAAAATTAAGTCGAAACTGTAA
>g2764.t1 Gene=g2764 Length=547
MSEDWFKPAFIENDIKQCLSAKTEKEIKSKARKKNSETNEESLIRKSKSLEQTSNAVDKK
RRSGNDIENEDQNKNKQKVPKKRKKEIVAQSQPTIEISEVKWLDIFTPKTINELLVHPKK
IEEIKHWFQLNRKHPDDHHILLLSGPAGCGKQTCTKMIASEEGFNICEFESRLDISDDLV
KNDYNVPYENQKEKFENFLLTSTRFQSLFTTKSRLLIVKDFPNVFLIKEGNEEFWSSLRK
FKKYSNAPVVFIITESKTKTLDLEYFLFPENIRKELGISKISMNPITTTMLKKAMKQICT
TLSNNEHFKIPTQETIDNIALQSLGDIQAAIYNLQLACQQGPQSLKSKKSDKKQNVPVKK
AKKEIGRDEQIDIFHGLGKVMYPKLEMDSMTERMKLTNNPENVAELFYDRFKTFTELLYS
NFLKNFTEIKGAAAVSDTLSMSNIFQTEYRQAENLHKISLCMAIRSAMVHNSEGAPSGFR
PVKGFASKKFKNMGMNNLEEYKKQRIGLNGGHRVTKKDFFADYKMFSSIIKPEEEESDEN
EKIKSKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g2764.t1 | Gene3D | G3DSA:3.40.50.300 | - | 100 | 265 | 1.6E-20 |
| 5 | g2764.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 22 | 77 | - |
| 6 | g2764.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 22 | 90 | - |
| 2 | g2764.t1 | PANTHER | PTHR12172 | CELL CYCLE CHECKPOINT PROTEIN RAD17 | 37 | 508 | 1.1E-81 |
| 3 | g2764.t1 | PANTHER | PTHR12172:SF0 | CELL CYCLE CHECKPOINT PROTEIN RAD17 | 37 | 508 | 1.1E-81 |
| 1 | g2764.t1 | Pfam | PF03215 | Rad17 P-loop domain | 101 | 257 | 4.0E-23 |
| 4 | g2764.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 101 | 339 | 1.72E-15 |
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:0006281 | DNA repair | BP |
KEGG
Orthology
- This transcript has been annotated with K06662 (cell cycle checkpoint protein)
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.
