General information for g13374.t1
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.t1 | TSS | g13374.t1 | 29585796 | 29585796 |
| chr_1 | g13374 | g13374.t1 | isoform | g13374.t1 | 29586607 | 29590734 |
| chr_1 | g13374 | g13374.t1 | exon | g13374.t1.exon1 | 29586607 | 29586625 |
| chr_1 | g13374 | g13374.t1 | cds | g13374.t1.CDS1 | 29586607 | 29586625 |
| chr_1 | g13374 | g13374.t1 | exon | g13374.t1.exon2 | 29587360 | 29589002 |
| chr_1 | g13374 | g13374.t1 | cds | g13374.t1.CDS2 | 29587360 | 29589002 |
| chr_1 | g13374 | g13374.t1 | exon | g13374.t1.exon3 | 29589061 | 29589264 |
| chr_1 | g13374 | g13374.t1 | cds | g13374.t1.CDS3 | 29589061 | 29589264 |
| chr_1 | g13374 | g13374.t1 | exon | g13374.t1.exon4 | 29589326 | 29589431 |
| chr_1 | g13374 | g13374.t1 | cds | g13374.t1.CDS4 | 29589326 | 29589431 |
| chr_1 | g13374 | g13374.t1 | exon | g13374.t1.exon5 | 29589498 | 29589664 |
| chr_1 | g13374 | g13374.t1 | cds | g13374.t1.CDS5 | 29589498 | 29589664 |
| chr_1 | g13374 | g13374.t1 | exon | g13374.t1.exon6 | 29589857 | 29589935 |
| chr_1 | g13374 | g13374.t1 | cds | g13374.t1.CDS6 | 29589857 | 29589935 |
| chr_1 | g13374 | g13374.t1 | exon | g13374.t1.exon7 | 29590481 | 29590734 |
| chr_1 | g13374 | g13374.t1 | cds | g13374.t1.CDS7 | 29590481 | 29590734 |
| chr_1 | g13374 | g13374.t1 | TTS | g13374.t1 | 29590871 | 29590871 |
Sequences
>g13374.t1 Gene=g13374 Length=2472
ATGTCACAAAATCGCACGATGTCTCACAATCCTTATCAAAATTCCGAAATGGCAATGGGA
AAGGATCAACAAACGTTGATGTGGCAACAAAATTCATACTTGGCTGGCGGTGATTCTGGC
ATTCAATCGGGTGCAATCACTCAAGTACCATCATTGAGCGGTAAAGATGATGATGAAATG
GGAGGTGGTGATGATACACTTATGTTTGATCTTGATCAAGGTTTCAATCAAAATTATACA
CAAGATCAAGTTGATGATATGAATCAGCAGTTAAATCAAACTCGTAGTCAACGAGTTCGT
GCTGCAATGTTTCCAGAAACTTTGGAAGAAGGCATAGAAATTCCATCGACACAATTTGAT
CCACAACAACCAACTGCTGTTCAGCGGTTGTCTGAACCTTCACAAATGTTAAAACACGCT
GTTGTTAATTTGATTAATTATCAAGATGATGCAGATTTGGCCACACGTGCCATTCCTGAA
TTGATTAAATTACTTAATGATGAAGATCAAGTTGTTGTCTCACAAGCTGCAATGATGGTA
CATCAATTATCTAAGAAAGAAGCTTCACGTCATGCCATTATGAACAGTCCACAAATGGTT
GCTGCTTTGGTTCGTGCATTGTCCACCAGCAATGACTTGGAAACAACAAAGGGAGCTGTC
GGAACCCTTCACAATTTATCACACCATCGTCAAGGTCTTTTGGCTATTTTCAAAAGTGGT
GGCATTCCTGCATTGGTCAAGTTGTTGTCATCACCAGTTGAAAGTGTTTTGTTCTATGCA
ATCACAACATTACACAATCTTTTGCTTCATCAAGATGGTTCAAAAATGGCTGTTCGTTTA
GCTGGAGGCTTGCAAAAGATGGTCGCATTATTACAGCGCAATAACGTAAAGTTCCTCGCC
ATCGTTACAGACTGCTTGCAAATTCTAGCTTATGGCAATCAAGAAAGCAAGTTGATTATT
TTAGCTTCCACTGGACCAATTGAGTTGGTTCGTATTATGCGTTCATATGACTATGAGAAG
TTATTGTGGACAACATCACGTGTATTGAAAGTTCTATCAGTCTGCTCTAGTAACAAACCA
GCAATTGTTGAAGCTGGTGGCATGCAAGCATTAGCTATGCATTTGGGAAATCCATCACAA
CGTTTGGTTCAAAATTGCTTATGGACATTGAGAAATTTATCAGATGCAGCAACAAAGGTC
GATGGTTTGGAGAATTTATTGCAAGGACTTGTTCATGTACTCGCCAGTTCAGATGTCAAT
GTTGTCACATGCGCTGCTGGAATTTTGTCAAATTTGACATGCAATAATCAGCGTAATAAA
GTGACAGTGTGCCAAGTTGGTGGCGTTGAAGCGCTCGTTCGAACAATTATTAATGCTGGT
GATCGTGAAGAAATTACTGAACCAGCAGTTTGTGCATTGCGTCATTTGACATCACGTCAT
CAAGAATCGGATGCAGCTCAGAATTTGGTTCGACAAAACTATGGATTACCAGTGATTGTA
AAGCTTTTGCATCCACCATCACGCTGGCCGTTAGTTAAGGCCGTTATTGGTCTCATTCGT
AATTTGGCAATATGTCCGGCAAATTCAACACCATTACGTGAACATGGTGCAATTCATCAT
CTTGTTCGATTGCTTATTCGCGCTTTCCAAGATACACAACGTCAACGATCATCAGTGGCA
ACAAGTGGTTCACAACAACCAGGTGCATATGCTGATGGTGTAAGAATGGAAGAAATTGTA
GAAGGCACAGTCGGTGCTTTGCATATTCTCTCAAAGGATGAATACAATCGTCAATTGATT
CGTCAACAAAATGTCATTCCTGTATTCGTTCAATTGCTCTTCTATAATGACATTGAAAAC
ATTCAGCGAGTCGCTGCAGGAGTATTGTGTGAATTAGCAGTTGATAAAGAAGTGGCAGAA
TTGATAGAACAAGAAGGAGCAACAGCTCCATTAACTGAATTATTAAATTCAGCTAATGAG
GGTGTTGCGACATACGCAGCTGCCGTGCTCTTCAAAATGAGCGAAGATAAATCTTTGGAT
TATAAGAAACGATTCTCAAGCGAGCTTACGACTTTACCAGTATTTCGTGATGATCAAATG
TGGAATAATGGCGACTTGACAATTGGACCAGATCTACAGGATATTTTGGCACCAGATCAA
GCCTATGAGGGTCTATATGGACAAAATCCCAACGCAAATGGTCGAGCATATCAACAAGGA
TATGATACATTACCAATCGATTCAATGCAAGGTCTAGAAATTGGTGGTGGCCAGCAGCAG
CAAAATTTAATGGGTGGCATGAATACCGGACCGCCTACATCGCCTAATATGATGGATATG
GAATGTGTTATTGGCGAAATGGATGCCAGTGAATTGACATTCCAACATCATTTGGGAAAT
GAATCAATGATGCCATCACCGCCTGCCAATGACAACTCGCAGGTTGCTGCCTGGTATGAT
ACCGACTTGTAA
>g13374.t1 Gene=g13374 Length=823
MSQNRTMSHNPYQNSEMAMGKDQQTLMWQQNSYLAGGDSGIQSGAITQVPSLSGKDDDEM
GGGDDTLMFDLDQGFNQNYTQDQVDDMNQQLNQTRSQRVRAAMFPETLEEGIEIPSTQFD
PQQPTAVQRLSEPSQMLKHAVVNLINYQDDADLATRAIPELIKLLNDEDQVVVSQAAMMV
HQLSKKEASRHAIMNSPQMVAALVRALSTSNDLETTKGAVGTLHNLSHHRQGLLAIFKSG
GIPALVKLLSSPVESVLFYAITTLHNLLLHQDGSKMAVRLAGGLQKMVALLQRNNVKFLA
IVTDCLQILAYGNQESKLIILASTGPIELVRIMRSYDYEKLLWTTSRVLKVLSVCSSNKP
AIVEAGGMQALAMHLGNPSQRLVQNCLWTLRNLSDAATKVDGLENLLQGLVHVLASSDVN
VVTCAAGILSNLTCNNQRNKVTVCQVGGVEALVRTIINAGDREEITEPAVCALRHLTSRH
QESDAAQNLVRQNYGLPVIVKLLHPPSRWPLVKAVIGLIRNLAICPANSTPLREHGAIHH
LVRLLIRAFQDTQRQRSSVATSGSQQPGAYADGVRMEEIVEGTVGALHILSKDEYNRQLI
RQQNVIPVFVQLLFYNDIENIQRVAAGVLCELAVDKEVAELIEQEGATAPLTELLNSANE
GVATYAAAVLFKMSEDKSLDYKKRFSSELTTLPVFRDDQMWNNGDLTIGPDLQDILAPDQ
AYEGLYGQNPNANGRAYQQGYDTLPIDSMQGLEIGGGQQQQNLMGGMNTGPPTSPNMMDM
ECVIGEMDASELTFQHHLGNESMMPSPPANDNSQVAAWYDTDL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 29 | g13374.t1 | Gene3D | G3DSA:1.25.10.10 | - | 138 | 698 | 0.0000e+00 |
| 5 | g13374.t1 | PANTHER | PTHR45976 | ARMADILLO SEGMENT POLARITY PROTEIN | 22 | 823 | 0.0000e+00 |
| 6 | g13374.t1 | PANTHER | PTHR45976:SF1 | ARMADILLO SEGMENT POLARITY PROTEIN | 22 | 823 | 0.0000e+00 |
| 14 | g13374.t1 | PRINTS | PR01869 | Beta-catenin family signature | 92 | 112 | 0.0000e+00 |
| 10 | g13374.t1 | PRINTS | PR01869 | Beta-catenin family signature | 125 | 139 | 0.0000e+00 |
| 9 | g13374.t1 | PRINTS | PR01869 | Beta-catenin family signature | 176 | 197 | 0.0000e+00 |
| 13 | g13374.t1 | PRINTS | PR01869 | Beta-catenin family signature | 240 | 259 | 0.0000e+00 |
| 8 | g13374.t1 | PRINTS | PR01869 | Beta-catenin family signature | 296 | 318 | 0.0000e+00 |
| 12 | g13374.t1 | PRINTS | PR01869 | Beta-catenin family signature | 326 | 350 | 0.0000e+00 |
| 11 | g13374.t1 | PRINTS | PR01869 | Beta-catenin family signature | 450 | 475 | 0.0000e+00 |
| 15 | g13374.t1 | PRINTS | PR01869 | Beta-catenin family signature | 494 | 515 | 0.0000e+00 |
| 7 | g13374.t1 | PRINTS | PR01869 | Beta-catenin family signature | 616 | 638 | 0.0000e+00 |
| 2 | g13374.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 235 | 267 | 4.0000e-07 |
| 1 | g13374.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 356 | 395 | 0.0000e+00 |
| 3 | g13374.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 436 | 478 | 8.3000e-06 |
| 4 | g13374.t1 | Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 595 | 633 | 3.0000e-07 |
| 34 | g13374.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 156 | 196 | 1.1287e+01 |
| 33 | g13374.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 198 | 241 | 1.3877e+01 |
| 30 | g13374.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 240 | 282 | 1.4717e+01 |
| 36 | g13374.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 282 | 324 | 9.1520e+00 |
| 37 | g13374.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 324 | 367 | 8.8370e+00 |
| 35 | g13374.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 405 | 447 | 1.2547e+01 |
| 32 | g13374.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 447 | 485 | 1.3212e+01 |
| 38 | g13374.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 494 | 537 | 1.0237e+01 |
| 31 | g13374.t1 | ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 604 | 647 | 1.1567e+01 |
| 24 | g13374.t1 | SMART | SM00185 | arm_5 | 146 | 185 | 8.4000e+00 |
| 22 | g13374.t1 | SMART | SM00185 | arm_5 | 186 | 228 | 3.1000e-01 |
| 28 | g13374.t1 | SMART | SM00185 | arm_5 | 229 | 269 | 7.9000e-05 |
| 21 | g13374.t1 | SMART | SM00185 | arm_5 | 270 | 311 | 4.6000e-02 |
| 23 | g13374.t1 | SMART | SM00185 | arm_5 | 313 | 354 | 8.9000e+01 |
| 26 | g13374.t1 | SMART | SM00185 | arm_5 | 355 | 395 | 1.0000e-07 |
| 25 | g13374.t1 | SMART | SM00185 | arm_5 | 396 | 434 | 1.6000e+02 |
| 18 | g13374.t1 | SMART | SM00185 | arm_5 | 435 | 478 | 8.3000e-05 |
| 27 | g13374.t1 | SMART | SM00185 | arm_5 | 482 | 524 | 2.8000e-03 |
| 17 | g13374.t1 | SMART | SM00185 | arm_5 | 525 | 592 | 3.6000e-03 |
| 19 | g13374.t1 | SMART | SM00185 | arm_5 | 593 | 634 | 2.1000e-06 |
| 20 | g13374.t1 | SMART | SM00185 | arm_5 | 635 | 675 | 1.6000e+00 |
| 16 | g13374.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 140 | 675 | 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.
