General information for g6682.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein artemis.
Parent gene
- The parent gene g6682 is located on chr_2: 18063212..18071363 (- 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 | g6682 | g6682.t1 | TTS | g6682.t1 | 18063009 | 18063009 |
| chr_2 | g6682 | g6682.t1 | isoform | g6682.t1 | 18063212 | 18064350 |
| chr_2 | g6682 | g6682.t1 | exon | g6682.t1.exon1 | 18063212 | 18063732 |
| chr_2 | g6682 | g6682.t1 | cds | g6682.t1.CDS1 | 18063212 | 18063732 |
| chr_2 | g6682 | g6682.t1 | exon | g6682.t1.exon2 | 18063792 | 18064350 |
| chr_2 | g6682 | g6682.t1 | cds | g6682.t1.CDS2 | 18063792 | 18064350 |
| chr_2 | g6682 | g6682.t1 | TSS | g6682.t1 | 18064447 | 18064447 |
Sequences
>g6682.t1 Gene=g6682 Length=1080
ATGAGCACTTTTTCTGGTGAAATTATTGAAATTCCAGGAATTGCGGTGGATAATTTTACG
AATGATTCTGTAAAATGTTTTTTTCTTTCGCATTGTCATACTGATCATCTGATTGGAATA
AAGGATCTATCAAATTCAGAACTTCCTATCTATACAACAGAATTATCAGCAATGATTTTG
AAAACTCAATACCCTGATTTAAATGTCAAGTCTATTGAAATAGGAGTACCAACAAATTTT
GAATTAGAAATTGATTCTAAACATGAAACAAAGTTTATTGTTACTCTGATTAATGGAGGT
CATTGTATAGGATCTTGTATGTTTTTATTTCAAACGGAGGAGCATGACATTCTATATACT
GGAGATTTTCGTTTTACATTAAAAGATGTAGAAAATATACAGATACTTAAAGATGCTAAA
ATATATGGGAAATTAAAAATTTACTTAGATACGACGTTTATGAAAAATGAATACAAAAAT
TTTCCTCGACAAAAAGATAGCTGTCAAAAAGTTGTTGAAATTGTACAAAATCATTTGGGC
CAATCACAAATGAATAAAGTCATGCTTCAAACATCAGCACGTTATGGATATGAACGTTTG
CTCATTCAACTTTATGAAAAATTGAATGAGAAAATTTTTGTAGCAAATAAGAAAGTGATG
GAGCAATATTTAATGATATCTGAAATATCCAAATGCATTACGACAAGCAAAAGCTATTCA
AGATTACATTTAAATACAGGATCTGAAGAAAATCATGATGTTGAAAAACATAGAGAAAAC
TATTTGAAAATTCATCTCTCTGCAATGTTCTGGACTAATTGGAATGAATCACTGCCTTTT
ATATATAAAGTAGAAAAGAACAATTTTAGAGTATGCTATGCTACTCATTGTAGTTTATCA
GAAATTAAAGATATTTTATATTATTTGAAACCATTGTCAATTTATCCAACAGTCCTACCA
GAAAAATCTAACGAACGAACAAAAATGTTTACATTAATTGATGAAATCATCAACTCATAT
AATGATAAGAAAACTGAAACAAAAGAAAGATTTTCATTTAAAAGGCTTAAAACATCTTAA
>g6682.t1 Gene=g6682 Length=359
MSTFSGEIIEIPGIAVDNFTNDSVKCFFLSHCHTDHLIGIKDLSNSELPIYTTELSAMIL
KTQYPDLNVKSIEIGVPTNFELEIDSKHETKFIVTLINGGHCIGSCMFLFQTEEHDILYT
GDFRFTLKDVENIQILKDAKIYGKLKIYLDTTFMKNEYKNFPRQKDSCQKVVEIVQNHLG
QSQMNKVMLQTSARYGYERLLIQLYEKLNEKIFVANKKVMEQYLMISEISKCITTSKSYS
RLHLNTGSEENHDVEKHRENYLKIHLSAMFWTNWNESLPFIYKVEKNNFRVCYATHCSLS
EIKDILYYLKPLSIYPTVLPEKSNERTKMFTLIDEIINSYNDKKTETKERFSFKRLKTS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g6682.t1 | Gene3D | G3DSA:3.60.15.10 | - | 13 | 318 | 0.0e+00 |
| 6 | g6682.t1 | Gene3D | G3DSA:3.40.50.12650 | - | 160 | 296 | 0.0e+00 |
| 2 | g6682.t1 | PANTHER | PTHR23240 | DNA CROSS-LINK REPAIR PROTEIN PSO2/SNM1-RELATED | 9 | 335 | 0.0e+00 |
| 3 | g6682.t1 | PANTHER | PTHR23240:SF8 | PROTEIN ARTEMIS | 9 | 335 | 0.0e+00 |
| 1 | g6682.t1 | Pfam | PF07522 | DNA repair metallo-beta-lactamase | 286 | 321 | 2.9e-06 |
| 4 | g6682.t1 | SUPERFAMILY | SSF56281 | Metallo-hydrolase/oxidoreductase | 12 | 320 | 0.0e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K10887 (DNA cross-link repair 1C protein [EC:3.1.-.-])
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.
