General information for g8042.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | isoform | g8042.t1 | 28192260 | 28194981 |
| chr_2 | g8042 | g8042.t1 | exon | g8042.t1.exon1 | 28192260 | 28192273 |
| chr_2 | g8042 | g8042.t1 | cds | g8042.t1.CDS1 | 28192260 | 28192273 |
| chr_2 | g8042 | g8042.t1 | exon | g8042.t1.exon2 | 28192350 | 28194852 |
| chr_2 | g8042 | g8042.t1 | cds | g8042.t1.CDS2 | 28192350 | 28194852 |
| chr_2 | g8042 | g8042.t1 | exon | g8042.t1.exon3 | 28194910 | 28194981 |
| chr_2 | g8042 | g8042.t1 | cds | g8042.t1.CDS3 | 28194910 | 28194981 |
| chr_2 | g8042 | g8042.t1 | TSS | g8042.t1 | NA | NA |
| chr_2 | g8042 | g8042.t1 | TTS | g8042.t1 | NA | NA |
Sequences
>g8042.t1 Gene=g8042 Length=2589
ATGCAACATTACAATCATAGTAATGGTCAACATTCTCCAAACTCATCCCACATGTCGATG
CATAGCGAGGATACATATGCAATTGCACAGAGAACTCACAAGCAACAGACAACTCAACAA
GTAACAACAGTTACAAAAGTAGTACGTGAAGTGAAACATCTTGGACCAGCCGATCCAAAC
GAATCATATGTTGCAATGCCATTACAAGTTGGTGCAAATGGACAACCAGTTGGAGTGGAC
TATGTAATGGGAGTTTATTCACCAAATCAATATATGAATTATAATCACATAGATCCGAAT
GCGGCAATGTATCTCACAGATCCAGCTGCAGCTGCAAGTCAATATCATCAGCATTATCAG
AATTATGAGCAGTATCCAGCAGTGAGTCAATATGCAAATTCAAATTATTCTGGTGGAAAT
GGAGTGGATGAGGCTGTGGCCACAGGCCAAAATTATAGAGGGAAATTCGAACGCTCAGGA
AGTCCACCATCACCGCAACGAGACTCAGCGTCTCCCTTACAACTTCATCAGCAAGTGCCA
CAATCAAATGCTACAGGAGTAACTTATTTGCAAGCGCAATATGACGATTATAGAATACTA
CCTGATCGAGCTGGAGGCTATCCAGAAGATCCTGCTCTTGTTTATGGCTATGTATCTACT
TCACCTTATGCTGGTGCAAGTAATGTTGCTGCACTTCAACAAATTGGTGCAGCTGGTATG
ACAGCATACGCAGGAGCAGGAGCTATTGATGATGAGGACGATGAATTGCAGAAACACATG
TCAAACCTTACAATGCATAATCATCAACTCGGCGCTCCAATTCCAATTGCTACAGGAGAA
GATGCAACTCAAGGACAAATGAGATGGCGTGATCCAAATCTCACAGAAGTTATCAATTTC
CTCAATAATCCCAATAATGTAATCAAGGCAAATGCTGCTGCATACCTTCAACATTTATGC
TATATGGATGATCCAAATAAGCAACGTACTCGTGCATTAGGAGGAATTCCAATTCTCGTA
AAACTATTATCACATGAGAGTCCTGAAGTCTATCGAAACGTATGTGGTGCATTGCGGAAT
CTCTCGTATGGTCGACAAAATGACGAGAATAAACGTGCAATAAAAAATGCTGGTGGAATT
CCGGCATTAATAAATCTATTAAGACGATCTACAGAGAGCGATATAAAGGAACTTGTTACT
GGTGTCATTTGGAATATGTCATCATGTGAGGATTTAAAGAGGTCAATTATAGATGATGGA
AGTTCAGTTATTGTTACTTACATTATCATTCCGCATTCTGGTTGGGATCCAGTTAATCCT
GGTGATACTTGCTGGAGCACGGTGTTTAGAAATGCTAGTGGCATTTTACGTAATGTTAGT
TCAGCAGGAGAGTATGCAAGAACAAAACTACGTGAGGCTGAAGGACTGGTCGATGCGCTA
CTTTATGTTGTAAAAGTAGCCATCGAAAAAACCAATATTGGTAACAAAATTGTAGAAAAC
TGTGTTTGCATTTTAAGAAATTTGTCTTATCGATGTCAAGAAGTTGAGGACCCAAATTAC
GATAGACAACCAATTCCACAGCCAACGCGATCAACAGGATCAACTAAAAGTGAAAATCTA
GGGTGCTTTGGAGCAAGTAAAAAGAAAAAAGATCAAAATAGTGACAAAGATGGTGCCGTA
AGTAGCAATGGTGGAATTCCTGGACAAAATGGAGCAAGTTCAAGCGGTAACTCATTATCT
TCACGAAGCAACTCATTACAAAGAAACAACAATGAGTCACCTAAAGGCTACGAATTATTG
TGGCAGCCAGAAGTTGTACAATCATATCTAGCACTCCTTCAGAGTTGTAGTAATCCCGAA
ACCCTGGAAGCAGCTGCAGGAGCAATTCAAAATTTAGCGGCTTGCTACTGGCAACCAAGT
ATTGAAATTCGTGCAGCTGTCCGAAAAGATAAAGGTTTACCTATTCTTGTCGAATTACTT
CGAATGGAAGTAGATCGAGTTGTATGTGCGGTTGCAACCGCTCTACGAAATCTTGCCATA
GATCAACGCAACAAAGAACTGATAGGAAAATATGCAATGCGTGACCTCGTTCAAAAGCTT
CCATCTGGTAATGCACAGCATGATCAAGGAACATCAGATGATACAATAGCAGCAGTCTTA
GCGACCCTCAATGAAGTAATCAAAAAAAATGCGGAATTCTCGAGATCACTTTTAGATGCA
GGTGGTGTTGAACGATTAATGAATGTTACCAAACAACGACAAAAGTATACTCCACGAGTG
TTAAAATTTGCTGGACAAGTTTTGTTTACAATGTGGCAGCATCAAGAGCTGAGAGATGTG
TATAAAAAGCATGGTTGGAAAGAACAAGATTTTGTGACAAAAACTATAGCCGCACGTAAT
GCTGCACCTAATTCACCAAACAATGCTATTAGCACGCTAAATCGTCCAATGGCTTCACAA
AGTGGAACACGATATGAAGATAGCACAATGAAACGACATGGTGGAGGATATTCACGTGCT
GGCGGAGGAGGTGGAAGTAATGACGATGGGCGCTATCAACAGCAACAGGGAAACGGCGGA
CCTTTATAA
>g8042.t1 Gene=g8042 Length=862
MQHYNHSNGQHSPNSSHMSMHSEDTYAIAQRTHKQQTTQQVTTVTKVVREVKHLGPADPN
ESYVAMPLQVGANGQPVGVDYVMGVYSPNQYMNYNHIDPNAAMYLTDPAAAASQYHQHYQ
NYEQYPAVSQYANSNYSGGNGVDEAVATGQNYRGKFERSGSPPSPQRDSASPLQLHQQVP
QSNATGVTYLQAQYDDYRILPDRAGGYPEDPALVYGYVSTSPYAGASNVAALQQIGAAGM
TAYAGAGAIDDEDDELQKHMSNLTMHNHQLGAPIPIATGEDATQGQMRWRDPNLTEVINF
LNNPNNVIKANAAAYLQHLCYMDDPNKQRTRALGGIPILVKLLSHESPEVYRNVCGALRN
LSYGRQNDENKRAIKNAGGIPALINLLRRSTESDIKELVTGVIWNMSSCEDLKRSIIDDG
SSVIVTYIIIPHSGWDPVNPGDTCWSTVFRNASGILRNVSSAGEYARTKLREAEGLVDAL
LYVVKVAIEKTNIGNKIVENCVCILRNLSYRCQEVEDPNYDRQPIPQPTRSTGSTKSENL
GCFGASKKKKDQNSDKDGAVSSNGGIPGQNGASSSGNSLSSRSNSLQRNNNESPKGYELL
WQPEVVQSYLALLQSCSNPETLEAAAGAIQNLAACYWQPSIEIRAAVRKDKGLPILVELL
RMEVDRVVCAVATALRNLAIDQRNKELIGKYAMRDLVQKLPSGNAQHDQGTSDDTIAAVL
ATLNEVIKKNAEFSRSLLDAGGVERLMNVTKQRQKYTPRVLKFAGQVLFTMWQHQELRDV
YKKHGWKEQDFVTKTIAARNAAPNSPNNAISTLNRPMASQSGTRYEDSTMKRHGGGYSRA
GGGGGSNDDGRYQQQQGNGGPL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 23 | g8042.t1 | Gene3D | G3DSA:1.25.10.10 | - | 293 | 771 | 2.3E-192 |
| 20 | g8042.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - |
| 14 | g8042.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 153 | 179 | - |
| 15 | g8042.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 154 | 179 | - |
| 17 | g8042.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 519 | 591 | - |
| 21 | g8042.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 524 | 541 | - |
| 22 | g8042.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 557 | 591 | - |
| 18 | g8042.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 797 | 862 | - |
| 19 | g8042.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 798 | 825 | - |
| 16 | g8042.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 848 | 862 | - |
| 5 | g8042.t1 | PANTHER | PTHR10372:SF27 | ADHERENS JUNCTION PROTEIN P120 | 277 | 833 | 6.8E-243 |
| 6 | g8042.t1 | PANTHER | PTHR10372 | PLAKOPHILLIN-RELATED | 277 | 833 | 6.8E-243 |
| 2 | g8042.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 323 | 362 | 1.0E-8 |
| 3 | g8042.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 367 | 408 | 3.5E-8 |
| 4 | g8042.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 597 | 634 | 1.5E-5 |
| 1 | g8042.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 642 | 679 | 8.8E-6 |
| 26 | g8042.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 334 | 379 | 14.787 |
| 24 | g8042.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 378 | 421 | 12.127 |
| 25 | g8042.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 651 | 688 | 11.287 |
| 11 | g8042.t1 | SMART | SM00185 | arm_5 | 323 | 363 | 3.0E-8 |
| 10 | g8042.t1 | SMART | SM00185 | arm_5 | 367 | 408 | 1.9E-7 |
| 13 | g8042.t1 | SMART | SM00185 | arm_5 | 463 | 510 | 280.0 |
| 8 | g8042.t1 | SMART | SM00185 | arm_5 | 593 | 634 | 24.0 |
| 9 | g8042.t1 | SMART | SM00185 | arm_5 | 640 | 680 | 3.5E-5 |
| 12 | g8042.t1 | SMART | SM00185 | arm_5 | 730 | 773 | 180.0 |
| 7 | g8042.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 293 | 780 | 3.93E-73 |
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 transcript has been annotated with K23491 (catenin delta-2)
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.
