General information for g8042.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Catenin delta-2.
Parent gene
- The parent gene g8042 is located on chr_2: 28194377..28196907 (+ 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 | g8042 | g8042.t3 | isoform | g8042.t3 | 28194377 | 28196907 |
| chr_2 | g8042 | g8042.t3 | exon | g8042.t3.exon1 | 28194377 | 28194852 |
| chr_2 | g8042 | g8042.t3 | cds | g8042.t3.CDS1 | 28194412 | 28194852 |
| chr_2 | g8042 | g8042.t3 | exon | g8042.t3.exon2 | 28194910 | 28196907 |
| chr_2 | g8042 | g8042.t3 | cds | g8042.t3.CDS2 | 28194910 | 28194981 |
| chr_2 | g8042 | g8042.t3 | TTS | g8042.t3 | 28196992 | 28196992 |
| chr_2 | g8042 | g8042.t3 | TSS | g8042.t3 | NA | NA |
Sequences
>g8042.t3 Gene=g8042 Length=2474
ATCAACGCAACAAAGAACTGATAGGAAAATATGCAATGCGTGACCTCGTTCAAAAGCTTC
CATCTGGTAATGCACAGCATGATCAAGGAACATCAGATGATACAATAGCAGCAGTCTTAG
CGACCCTCAATGAAGTAATCAAAAAAAATGCGGAATTCTCGAGATCACTTTTAGATGCAG
GTGGTGTTGAACGATTAATGAATGTTACCAAACAACGACAAAAGTATACTCCACGAGTGT
TAAAATTTGCTGGACAAGTTTTGTTTACAATGTGGCAGCATCAAGAGCTGAGAGATGTGT
ATAAAAAGCATGGTTGGAAAGAACAAGATTTTGTGACAAAAACTATAGCCGCACGTAATG
CTGCACCTAATTCACCAAACAATGCTATTAGCACGCTAAATCGTCCAATGGCTTCACAAA
GTGGAACACGATATGAAGATAGCACAATGAAACGACATGGTGGAGGATATTCACGTGCTG
GCGGAGGAGGTGGAAGTAATGACGATGGGCGCTATCAACAGCAACAGGGAAACGGCGGAC
CTTTATAAAATGTTATTAACGTATGTTTATGTTAATTACTAAAAAAATATTCTAATAATA
ACTTCTCCTTCTCTCTCTCTGTCTGTCTCGTGACTTCTCCTTTCAAAGAGTAAGCAAAGA
AATGAACATAAATATTGACTATGCTATCAATTTAATAGGAACAAAAATGCTTAAAACGAC
ATGTTATGCGATAGTCGCGACTGCAGAATGGGAAAATTATTGAGTTAATTATTAATAACG
GTCTCTTTAAAAAGGAGAGTAAAAAAATTACATCATATAGCGCACTTAGTGAATTTAAAA
AAATACTGATTCCATACAAATTTTTCAAAACCGAAATGGTGTAAGGCAAATAAGAAATAA
GCACTTAAACTTATAAATAATAATAATTCATATTCAAGATAAATTTATATTTGAAATTCT
CTAGTAAAAAAATACTCGTAAAGATTTTAATACCAATCGTTCATTATTTGATGATGATAG
TGTGAGTAATAAGTTATAAAAGTTTGCAACAGAGGATAAAAGAGAGAATTTTTAATTTTA
TTAGCATTTTGCTTTTATTACTTAAATTTACAGTCAGTGTAAATAATTGGCAAATTTCAC
TTTAAATTGAAAAGAAAAAGAAATCATAGTATTTTCTGTTTCAAATTTCCACATGTGATT
CAAAAAAAAAATTCACATAAATGTAACCAAACACAAAAATATGTATTCATCGGTACTTTT
TATATAAGAAAAATAATAAACAAGTCTCTCTCACTCAATTTAATCCCTGTGTATTTGAGA
CTTATGTCAATAGTCAGCAGCAGCTTTTCATAGTCTCATTTCAAACTTATTGACTCATAC
ATATACAGAATAACATACAAAAAGGATAGAGAAGACTAAAATGCAGTAGTTAAAGAGTCT
ATCGTTGCTTTTAAATGAAATACGATATTTCACATAGACTTATTCCCTCATACATAATAT
TTATAACCAAATTCTTTTCTTTGCGTTCTGCACATTCATCAGAATAAAAATTCTGCTTCA
CAAATTCACACATACATTCAAATATTCACTCACAAAGTCTGAAATTTAAAAAAAATCGTG
CGATATAAAGAAAAAGAAGAGATGATATATAAAGCAGAAAAATTAATTTCCCAAGATTGT
TGTTGAATTTTTTTATTATTAAATTTAATGAGTGCGGGCAGACGATGAGAGACTAATGAA
AGAATGAAAGAAAAATTGATTTTATATTTAATATGTATCAAATCATTGGCACACGAACTT
TTACACTTCTTCGTGTTTAATTATTCATGGTACAGCGGATGAAAGTAAATAGAAATTCAA
TTCCAGTTTAAGTTTAAATTTTAAGTGAAAAGGAAAATACATTTTTAACGACACACCGTT
AGTGTAGACATATGTTTAATCATTCCTAATATTCCCTCTTCTATATTATACACGATCTTT
AAAATATATTTATATATATATTTTTTATCATAACATTTTCATTCCTTTTTTTATCTTTTC
CTTATTTTTCCTCAAAACATCATAAAATTTTTCAGAGAAATTAAATTTTTAATATGTCTT
TTCTCTCTTCTTAATTGTATCATTCTCCTCTTAATTTGTAAGATGTATTTACAGAATTTT
TCATATTAAAAAAATCAAAATTAGTGTAAATGAGAAATCGCTCGAATACTATATAATGAC
TTTTCCATTGCAAACTATTCAAGCGTGTTCTTCTTTTTCAAATAAATAAAATGTTTTAAT
GGACTGGCGGCGGATTTTAGTTCTATTAAACTAAAGAAATGAGATGAGAGAAGACGTGTT
TGTAAAATTATTAAAATAATAATTATAATATTGCACCTAAATTATAACAGAACAAAAAAC
TTTTATATATAAAATAATAATTTTTTTAATTCACCAGTCATGAAGATGAAGATAGAGAAA
TTATTAAAATAGCA
>g8042.t3 Gene=g8042 Length=170
MRDLVQKLPSGNAQHDQGTSDDTIAAVLATLNEVIKKNAEFSRSLLDAGGVERLMNVTKQ
RQKYTPRVLKFAGQVLFTMWQHQELRDVYKKHGWKEQDFVTKTIAARNAAPNSPNNAIST
LNRPMASQSGTRYEDSTMKRHGGGYSRAGGGGGSNDDGRYQQQQGNGGPL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g8042.t3 | Gene3D | G3DSA:1.25.10.10 | - | 1 | 100 | 2.2E-35 |
| 5 | g8042.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 106 | 170 | - |
| 6 | g8042.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 106 | 133 | - |
| 4 | g8042.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 156 | 170 | - |
| 1 | g8042.t3 | PANTHER | PTHR10372:SF27 | ADHERENS JUNCTION PROTEIN P120 | 1 | 141 | 4.5E-45 |
| 2 | g8042.t3 | PANTHER | PTHR10372 | PLAKOPHILLIN-RELATED | 1 | 141 | 4.5E-45 |
| 3 | g8042.t3 | SUPERFAMILY | SSF48371 | ARM repeat | 4 | 88 | 1.73E-5 |
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:0098609 | cell-cell adhesion | BP |
| GO:0010172 | embryonic body morphogenesis | BP |
| GO:0032956 | regulation of actin cytoskeleton organization | BP |
| GO:0005912 | adherens junction | CC |
| GO:0045296 | cadherin binding | MF |
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.
