General information for g13374.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Armadillo segment polarity protein.
Parent gene
- The parent gene g13374 is located on chr_1: 29586607..29590734 (+ 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_1 | g13374 | g13374.t3 | TSS | g13374.t3 | 29585796 | 29585796 |
| chr_1 | g13374 | g13374.t3 | isoform | g13374.t3 | 29585811 | 29590734 |
| chr_1 | g13374 | g13374.t3 | exon | g13374.t3.exon1 | 29585811 | 29585898 |
| chr_1 | g13374 | g13374.t3 | exon | g13374.t3.exon2 | 29586542 | 29586625 |
| chr_1 | g13374 | g13374.t3 | cds | g13374.t3.CDS1 | 29586595 | 29586625 |
| chr_1 | g13374 | g13374.t3 | exon | g13374.t3.exon3 | 29587360 | 29589002 |
| chr_1 | g13374 | g13374.t3 | cds | g13374.t3.CDS2 | 29587360 | 29589002 |
| chr_1 | g13374 | g13374.t3 | exon | g13374.t3.exon4 | 29589061 | 29589264 |
| chr_1 | g13374 | g13374.t3 | cds | g13374.t3.CDS3 | 29589061 | 29589264 |
| chr_1 | g13374 | g13374.t3 | exon | g13374.t3.exon5 | 29589326 | 29589431 |
| chr_1 | g13374 | g13374.t3 | cds | g13374.t3.CDS4 | 29589326 | 29589431 |
| chr_1 | g13374 | g13374.t3 | exon | g13374.t3.exon6 | 29589498 | 29589664 |
| chr_1 | g13374 | g13374.t3 | cds | g13374.t3.CDS5 | 29589498 | 29589664 |
| chr_1 | g13374 | g13374.t3 | exon | g13374.t3.exon7 | 29589857 | 29589935 |
| chr_1 | g13374 | g13374.t3 | cds | g13374.t3.CDS6 | 29589857 | 29589935 |
| chr_1 | g13374 | g13374.t3 | exon | g13374.t3.exon8 | 29590481 | 29590734 |
| chr_1 | g13374 | g13374.t3 | cds | g13374.t3.CDS7 | 29590481 | 29590734 |
| chr_1 | g13374 | g13374.t3 | TTS | g13374.t3 | 29590871 | 29590871 |
Sequences
>g13374.t3 Gene=g13374 Length=2625
ATTTTGTAGTGAGCAGCCATTACTCAAAAAAACATTTTTGATTATAGACGAATAAAATAA
TCTTTAAGGTGACAAATATATAAAAACGGTGTGAAAGGAGTAATTTGATCTCTGTCGCCC
GTTAAATTTTCGCAACACACAATGAGCTATCAAATGTCACAAAATCGCACGATGTCTCAC
AATCCTTATCAAAATTCCGAAATGGCAATGGGAAAGGATCAACAAACGTTGATGTGGCAA
CAAAATTCATACTTGGCTGGCGGTGATTCTGGCATTCAATCGGGTGCAATCACTCAAGTA
CCATCATTGAGCGGTAAAGATGATGATGAAATGGGAGGTGGTGATGATACACTTATGTTT
GATCTTGATCAAGGTTTCAATCAAAATTATACACAAGATCAAGTTGATGATATGAATCAG
CAGTTAAATCAAACTCGTAGTCAACGAGTTCGTGCTGCAATGTTTCCAGAAACTTTGGAA
GAAGGCATAGAAATTCCATCGACACAATTTGATCCACAACAACCAACTGCTGTTCAGCGG
TTGTCTGAACCTTCACAAATGTTAAAACACGCTGTTGTTAATTTGATTAATTATCAAGAT
GATGCAGATTTGGCCACACGTGCCATTCCTGAATTGATTAAATTACTTAATGATGAAGAT
CAAGTTGTTGTCTCACAAGCTGCAATGATGGTACATCAATTATCTAAGAAAGAAGCTTCA
CGTCATGCCATTATGAACAGTCCACAAATGGTTGCTGCTTTGGTTCGTGCATTGTCCACC
AGCAATGACTTGGAAACAACAAAGGGAGCTGTCGGAACCCTTCACAATTTATCACACCAT
CGTCAAGGTCTTTTGGCTATTTTCAAAAGTGGTGGCATTCCTGCATTGGTCAAGTTGTTG
TCATCACCAGTTGAAAGTGTTTTGTTCTATGCAATCACAACATTACACAATCTTTTGCTT
CATCAAGATGGTTCAAAAATGGCTGTTCGTTTAGCTGGAGGCTTGCAAAAGATGGTCGCA
TTATTACAGCGCAATAACGTAAAGTTCCTCGCCATCGTTACAGACTGCTTGCAAATTCTA
GCTTATGGCAATCAAGAAAGCAAGTTGATTATTTTAGCTTCCACTGGACCAATTGAGTTG
GTTCGTATTATGCGTTCATATGACTATGAGAAGTTATTGTGGACAACATCACGTGTATTG
AAAGTTCTATCAGTCTGCTCTAGTAACAAACCAGCAATTGTTGAAGCTGGTGGCATGCAA
GCATTAGCTATGCATTTGGGAAATCCATCACAACGTTTGGTTCAAAATTGCTTATGGACA
TTGAGAAATTTATCAGATGCAGCAACAAAGGTCGATGGTTTGGAGAATTTATTGCAAGGA
CTTGTTCATGTACTCGCCAGTTCAGATGTCAATGTTGTCACATGCGCTGCTGGAATTTTG
TCAAATTTGACATGCAATAATCAGCGTAATAAAGTGACAGTGTGCCAAGTTGGTGGCGTT
GAAGCGCTCGTTCGAACAATTATTAATGCTGGTGATCGTGAAGAAATTACTGAACCAGCA
GTTTGTGCATTGCGTCATTTGACATCACGTCATCAAGAATCGGATGCAGCTCAGAATTTG
GTTCGACAAAACTATGGATTACCAGTGATTGTAAAGCTTTTGCATCCACCATCACGCTGG
CCGTTAGTTAAGGCCGTTATTGGTCTCATTCGTAATTTGGCAATATGTCCGGCAAATTCA
ACACCATTACGTGAACATGGTGCAATTCATCATCTTGTTCGATTGCTTATTCGCGCTTTC
CAAGATACACAACGTCAACGATCATCAGTGGCAACAAGTGGTTCACAACAACCAGGTGCA
TATGCTGATGGTGTAAGAATGGAAGAAATTGTAGAAGGCACAGTCGGTGCTTTGCATATT
CTCTCAAAGGATGAATACAATCGTCAATTGATTCGTCAACAAAATGTCATTCCTGTATTC
GTTCAATTGCTCTTCTATAATGACATTGAAAACATTCAGCGAGTCGCTGCAGGAGTATTG
TGTGAATTAGCAGTTGATAAAGAAGTGGCAGAATTGATAGAACAAGAAGGAGCAACAGCT
CCATTAACTGAATTATTAAATTCAGCTAATGAGGGTGTTGCGACATACGCAGCTGCCGTG
CTCTTCAAAATGAGCGAAGATAAATCTTTGGATTATAAGAAACGATTCTCAAGCGAGCTT
ACGACTTTACCAGTATTTCGTGATGATCAAATGTGGAATAATGGCGACTTGACAATTGGA
CCAGATCTACAGGATATTTTGGCACCAGATCAAGCCTATGAGGGTCTATATGGACAAAAT
CCCAACGCAAATGGTCGAGCATATCAACAAGGATATGATACATTACCAATCGATTCAATG
CAAGGTCTAGAAATTGGTGGTGGCCAGCAGCAGCAAAATTTAATGGGTGGCATGAATACC
GGACCGCCTACATCGCCTAATATGATGGATATGGAATGTGTTATTGGCGAAATGGATGCC
AGTGAATTGACATTCCAACATCATTTGGGAAATGAATCAATGATGCCATCACCGCCTGCC
AATGACAACTCGCAGGTTGCTGCCTGGTATGATACCGACTTGTAA
>g13374.t3 Gene=g13374 Length=827
MSYQMSQNRTMSHNPYQNSEMAMGKDQQTLMWQQNSYLAGGDSGIQSGAITQVPSLSGKD
DDEMGGGDDTLMFDLDQGFNQNYTQDQVDDMNQQLNQTRSQRVRAAMFPETLEEGIEIPS
TQFDPQQPTAVQRLSEPSQMLKHAVVNLINYQDDADLATRAIPELIKLLNDEDQVVVSQA
AMMVHQLSKKEASRHAIMNSPQMVAALVRALSTSNDLETTKGAVGTLHNLSHHRQGLLAI
FKSGGIPALVKLLSSPVESVLFYAITTLHNLLLHQDGSKMAVRLAGGLQKMVALLQRNNV
KFLAIVTDCLQILAYGNQESKLIILASTGPIELVRIMRSYDYEKLLWTTSRVLKVLSVCS
SNKPAIVEAGGMQALAMHLGNPSQRLVQNCLWTLRNLSDAATKVDGLENLLQGLVHVLAS
SDVNVVTCAAGILSNLTCNNQRNKVTVCQVGGVEALVRTIINAGDREEITEPAVCALRHL
TSRHQESDAAQNLVRQNYGLPVIVKLLHPPSRWPLVKAVIGLIRNLAICPANSTPLREHG
AIHHLVRLLIRAFQDTQRQRSSVATSGSQQPGAYADGVRMEEIVEGTVGALHILSKDEYN
RQLIRQQNVIPVFVQLLFYNDIENIQRVAAGVLCELAVDKEVAELIEQEGATAPLTELLN
SANEGVATYAAAVLFKMSEDKSLDYKKRFSSELTTLPVFRDDQMWNNGDLTIGPDLQDIL
APDQAYEGLYGQNPNANGRAYQQGYDTLPIDSMQGLEIGGGQQQQNLMGGMNTGPPTSPN
MMDMECVIGEMDASELTFQHHLGNESMMPSPPANDNSQVAAWYDTDL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 29 | g13374.t3 | Gene3D | G3DSA:1.25.10.10 | - | 142 | 702 | 0.0000e+00 |
| 5 | g13374.t3 | PANTHER | PTHR45976 | ARMADILLO SEGMENT POLARITY PROTEIN | 26 | 827 | 0.0000e+00 |
| 6 | g13374.t3 | PANTHER | PTHR45976:SF1 | ARMADILLO SEGMENT POLARITY PROTEIN | 26 | 827 | 0.0000e+00 |
| 8 | g13374.t3 | PRINTS | PR01869 | Beta-catenin family signature | 96 | 116 | 0.0000e+00 |
| 11 | g13374.t3 | PRINTS | PR01869 | Beta-catenin family signature | 129 | 143 | 0.0000e+00 |
| 7 | g13374.t3 | PRINTS | PR01869 | Beta-catenin family signature | 180 | 201 | 0.0000e+00 |
| 13 | g13374.t3 | PRINTS | PR01869 | Beta-catenin family signature | 244 | 263 | 0.0000e+00 |
| 10 | g13374.t3 | PRINTS | PR01869 | Beta-catenin family signature | 300 | 322 | 0.0000e+00 |
| 15 | g13374.t3 | PRINTS | PR01869 | Beta-catenin family signature | 330 | 354 | 0.0000e+00 |
| 12 | g13374.t3 | PRINTS | PR01869 | Beta-catenin family signature | 454 | 479 | 0.0000e+00 |
| 9 | g13374.t3 | PRINTS | PR01869 | Beta-catenin family signature | 498 | 519 | 0.0000e+00 |
| 14 | g13374.t3 | PRINTS | PR01869 | Beta-catenin family signature | 620 | 642 | 0.0000e+00 |
| 2 | g13374.t3 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 239 | 271 | 4.0000e-07 |
| 4 | g13374.t3 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 360 | 399 | 0.0000e+00 |
| 3 | g13374.t3 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 440 | 482 | 8.4000e-06 |
| 1 | g13374.t3 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 599 | 637 | 3.0000e-07 |
| 36 | g13374.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 160 | 200 | 1.1287e+01 |
| 37 | g13374.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 202 | 245 | 1.3877e+01 |
| 33 | g13374.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 244 | 286 | 1.4717e+01 |
| 32 | g13374.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 286 | 328 | 9.1520e+00 |
| 31 | g13374.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 328 | 371 | 8.8370e+00 |
| 35 | g13374.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 409 | 451 | 1.2547e+01 |
| 38 | g13374.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 451 | 489 | 1.3212e+01 |
| 30 | g13374.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 498 | 541 | 1.0237e+01 |
| 34 | g13374.t3 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 608 | 651 | 1.1567e+01 |
| 17 | g13374.t3 | SMART | SM00185 | arm_5 | 150 | 189 | 8.4000e+00 |
| 22 | g13374.t3 | SMART | SM00185 | arm_5 | 190 | 232 | 3.1000e-01 |
| 28 | g13374.t3 | SMART | SM00185 | arm_5 | 233 | 273 | 7.9000e-05 |
| 21 | g13374.t3 | SMART | SM00185 | arm_5 | 274 | 315 | 4.6000e-02 |
| 23 | g13374.t3 | SMART | SM00185 | arm_5 | 317 | 358 | 8.9000e+01 |
| 25 | g13374.t3 | SMART | SM00185 | arm_5 | 359 | 399 | 1.0000e-07 |
| 26 | g13374.t3 | SMART | SM00185 | arm_5 | 400 | 438 | 1.6000e+02 |
| 27 | g13374.t3 | SMART | SM00185 | arm_5 | 439 | 482 | 8.3000e-05 |
| 20 | g13374.t3 | SMART | SM00185 | arm_5 | 486 | 528 | 2.8000e-03 |
| 19 | g13374.t3 | SMART | SM00185 | arm_5 | 529 | 596 | 3.6000e-03 |
| 24 | g13374.t3 | SMART | SM00185 | arm_5 | 597 | 638 | 2.1000e-06 |
| 18 | g13374.t3 | SMART | SM00185 | arm_5 | 639 | 679 | 1.6000e+00 |
| 16 | g13374.t3 | SUPERFAMILY | SSF48371 | ARM repeat | 144 | 679 | 0.0000e+00 |
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:0007155 | cell adhesion | BP |
| GO:0005515 | protein binding | MF |
| GO:0045296 | cadherin binding | MF |
KEGG
Orthology
- This transcript has been annotated with K02105 (catenin beta 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.
