General information for g8042.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Armadillo repeat protein deleted in velo-cardio-facial syndrome-like protein.
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.t2 | isoform | g8042.t2 | 28190766 | 28193407 |
| chr_2 | g8042 | g8042.t2 | exon | g8042.t2.exon1 | 28190766 | 28191312 |
| chr_2 | g8042 | g8042.t2 | exon | g8042.t2.exon2 | 28191823 | 28191979 |
| chr_2 | g8042 | g8042.t2 | exon | g8042.t2.exon3 | 28192051 | 28192139 |
| chr_2 | g8042 | g8042.t2 | exon | g8042.t2.exon4 | 28192216 | 28192273 |
| chr_2 | g8042 | g8042.t2 | exon | g8042.t2.exon5 | 28192350 | 28193407 |
| chr_2 | g8042 | g8042.t2 | cds | g8042.t2.CDS1 | 28192387 | 28193406 |
| chr_2 | g8042 | g8042.t2 | TTS | g8042.t2 | 28193971 | 28193971 |
| chr_2 | g8042 | g8042.t2 | TSS | g8042.t2 | NA | NA |
Sequences
>g8042.t2 Gene=g8042 Length=1909
TGAAAGAAAATTAAAACAAAATCTTTTATTAATTTACGAAAAAATTCTCATTTTACAGAT
GTACATCACTGAAACCCGATTCCAACTGTCGGATGCATGTTTAAACATTGTTGTTTCGAA
ATGAAACCTTAAATTTTTAATAGGGCATAAAAAATCTTTTTAAAAAAAATTATAAAATTT
ACGGAAAAAAAACTTTTTAAATTTGGAGAAAAATAAATCATATGAAGTTAAAAGTTATTG
ACTTTCGCTCATAAGCAATTTAAAAATTAAAGTGTAATAAGGATAACGACTAAAATAACA
AAGAAGGTGTGTTATTTGATCAAAGAATTTGCATGGAAATTCCTAATGACGAAGCACTGT
TTTTGTTAAATTTTTATAAAAATTTAAGCTCAAAAGAGAAGTTTAAAAGAAAATTTTGAA
AATATAATTGAATATGAGCAAAATTATATAAATAAAATTAAACTGGATGTATAAAAAAGT
GCATTATTAAGTGAATATAGTATTTACAGTAAAATCTCTTTCATTCGAAAATTTCACTAC
AGTGAGGATTAATTTTTTAATGAAGTGAATTATCTTACAAATGTCATGGCATGGTTGAAA
ATTAGTTGAATCAACTTCATCATCGTCGTCTAACAAAAAATAATTCTTTTTACTCATAAA
ATCCGCTACAATAATCAGAACTACATTTTGTATCTCTCAATCAAATTCAATTACATTTAT
TATAAAGAAATCAGAAAGTAAGGAGAAGAGATATAAAAAGAAGAAGTGGAAAGGGTCAGT
GAATTGAGAAAAGTTTCGACGAAATAATAACTTTTTTCAAGCAGAGGAAAAAAGGATATG
CAACATTACAATCATAGTAATGGTCAACATTCTCCAAACTCATCCCACATGTCGATGCAT
AGCGAGGATACATATGCAATTGCACAGAGAACTCACAAGCAACAGACAACTCAACAAGTA
ACAACAGTTACAAAAGTAGTACGTGAAGTGAAACATCTTGGACCAGCCGATCCAAACGAA
TCATATGTTGCAATGCCATTACAAGTTGGTGCAAATGGACAACCAGTTGGAGTGGACTAT
GTAATGGGAGTTTATTCACCAAATCAATATATGAATTATAATCACATAGATCCGAATGCG
GCAATGTATCTCACAGATCCAGCTGCAGCTGCAAGTCAATATCATCAGCATTATCAGAAT
TATGAGCAGTATCCAGCAGTGAGTCAATATGCAAATTCAAATTATTCTGGTGGAAATGGA
GTGGATGAGGCTGTGGCCACAGGCCAAAATTATAGAGGGAAATTCGAACGCTCAGGAAGT
CCACCATCACCGCAACGAGACTCAGCGTCTCCCTTACAACTTCATCAGCAAGTGCCACAA
TCAAATGCTACAGGAGTAACTTATTTGCAAGCGCAATATGACGATTATAGAATACTACCT
GATCGAGCTGGAGGCTATCCAGAAGATCCTGCTCTTGTTTATGGCTATGTATCTACTTCA
CCTTATGCTGGTGCAAGTAATGTTGCTGCACTTCAACAAATTGGTGCAGCTGGTATGACA
GCATACGCAGGAGCAGGAGCTATTGATGATGAGGACGATGAATTGCAGAAACACATGTCA
AACCTTACAATGCATAATCATCAACTCGGCGCTCCAATTCCAATTGCTACAGGAGAAGAT
GCAACTCAAGGACAAATGAGATGGCGTGATCCAAATCTCACAGAAGTTATCAATTTCCTC
AATAATCCCAATAATGTAATCAAGGCAAATGCTGCTGCATACCTTCAACATTTATGCTAT
ATGGATGATCCAAATAAGCAACGTACTCGTGCATTAGGAGGAATTCCAATTCTCGTAAAA
CTATTATCACATGAGAGTCCTGAAGTCTATCGAAACGTATGTGGTGCAT
>g8042.t2 Gene=g8042 Length=340
MSMHSEDTYAIAQRTHKQQTTQQVTTVTKVVREVKHLGPADPNESYVAMPLQVGANGQPV
GVDYVMGVYSPNQYMNYNHIDPNAAMYLTDPAAAASQYHQHYQNYEQYPAVSQYANSNYS
GGNGVDEAVATGQNYRGKFERSGSPPSPQRDSASPLQLHQQVPQSNATGVTYLQAQYDDY
RILPDRAGGYPEDPALVYGYVSTSPYAGASNVAALQQIGAAGMTAYAGAGAIDDEDDELQ
KHMSNLTMHNHQLGAPIPIATGEDATQGQMRWRDPNLTEVINFLNNPNNVIKANAAAYLQ
HLCYMDDPNKQRTRALGGIPILVKLLSHESPEVYRNVCGA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g8042.t2 | Gene3D | G3DSA:1.25.10.10 | - | 276 | 340 | 1.9E-20 |
| 6 | g8042.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 24 | - |
| 5 | g8042.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 136 | 162 | - |
| 7 | g8042.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 137 | 162 | - |
| 2 | g8042.t2 | PANTHER | PTHR10372:SF27 | ADHERENS JUNCTION PROTEIN P120 | 267 | 340 | 8.4E-30 |
| 3 | g8042.t2 | PANTHER | PTHR10372 | PLAKOPHILLIN-RELATED | 267 | 340 | 8.4E-30 |
| 1 | g8042.t2 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 306 | 340 | 5.0E-5 |
| 9 | g8042.t2 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 317 | 340 | 8.802 |
| 4 | g8042.t2 | SUPERFAMILY | SSF48371 | ARM repeat | 276 | 340 | 3.6E-11 |
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:0005515 | protein binding | MF |
| 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.
