Gene loci information

Transcript annotation

  • This transcript has been annotated as Disks large 1 tumor suppressor protein.

Parent gene

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 g13718 g13718.t4 isoform g13718.t4 32010933 32017516
chr_1 g13718 g13718.t4 exon g13718.t4.exon1 32010933 32011097
chr_1 g13718 g13718.t4 TSS g13718.t4 32010936 32010936
chr_1 g13718 g13718.t4 exon g13718.t4.exon2 32012943 32013211
chr_1 g13718 g13718.t4 cds g13718.t4.CDS1 32013125 32013211
chr_1 g13718 g13718.t4 exon g13718.t4.exon3 32016531 32016592
chr_1 g13718 g13718.t4 cds g13718.t4.CDS2 32016531 32016592
chr_1 g13718 g13718.t4 exon g13718.t4.exon4 32016657 32016870
chr_1 g13718 g13718.t4 cds g13718.t4.CDS3 32016657 32016870
chr_1 g13718 g13718.t4 exon g13718.t4.exon5 32016937 32017011
chr_1 g13718 g13718.t4 cds g13718.t4.CDS4 32016937 32017011
chr_1 g13718 g13718.t4 exon g13718.t4.exon6 32017078 32017516
chr_1 g13718 g13718.t4 cds g13718.t4.CDS5 32017078 32017515
chr_1 g13718 g13718.t4 TTS g13718.t4 NA NA

Sequences

>g13718.t4 Gene=g13718 Length=1224
GTACAGTATTTTCTGACGATTTTATTGCAAGAGGTTTCGTTTAATTTAGTTTTGTGGTTT
TATTTAAATTTTAATATGTTAATAAGATGTTTTAATTGTTAAAAAGTGCCTTAAACCATT
ATCGGAAATTCTAAGAAGTGCTTATTCTTTTTAGTTTATTAAAAGGCACAATACCATAAA
ATGTTATATAAATAAAAAGAAAAGTGTGAAAATTTTTGTTGAAAAAAATTGAACTTGACA
TTTACATTAAAGAACGAATCAAAAAATAATTAATCAAATTGATTGGATTTTATCTCTATT
AACAACTATAACTTTGATACTAAGCTAATAATATATAATAAAAAAGTATGACGACACGAA
AGAAGAATAAAAATCAACAGAAGGAGACTGGTGGATTTATAAAAAAGGTTTCATCATTAT
TTAATTTAGATACGGTCAATGGAGATGATCAATGGGTGCATGAGGAAATCGCTTTATCAC
GAGGCTCAAGTGGACTCGGATTCAGTATAGCAGGAGGCACTGATAATCCACACATCGGGA
CTGATACATCAATTTATATCACAAAAATAATTCCCGGTGGAGCCGCATATTCAGACGGTC
GTATTCAAGTAAATGACATTATTGTATCAGTCAATGATGTATCAGTTGTTGATGTTACGC
ATGCACTTGCTGTTGAAGCGCTTAAAAGTGCTGGTGATAGAGTCAAATTGAATGTTAAAA
GAAAACGTCCACCAGCCGTTCCACAAACTGCTGAAATCGATCTCGTAAAGGGTGACAAAA
CATTGGGTTTTAGTATAGCAGGAGGCATAGGAAATCAACATATTCCAGGTGATAATGGAA
TTTATGTTACAAAAATAATGGATGGTGGAGCAGCAGCAGTTGATGGTCGACTAAGTATTG
GCGACAAATTGCTCAATGTTAAAACAAAGACGATGAACAAAAATTTAGAGAATGTTTCAC
ACGAAGATGCTGTTGCAACGCTTAAAGCAATTACTGATCGTGTGGTTTTAACAGTACAGA
AAGCTCAACATGTTGTTCATAGCACATCATACCTTAATCAAAACAATTCACAATCAATGA
ATGCAATGAATAATATTAGTACCACAGGTTTAGACCTTAATGATAGCGGAAGAACTCATT
CACCTCTGCCCGTCTTGGAAAATTCATCATCGCGACATGCATCTACAAATGTTTTGGCAA
CGCCGCGTGCCGTCAGTCATGAAG

>g13718.t4 Gene=g13718 Length=292
MTTRKKNKNQQKETGGFIKKVSSLFNLDTVNGDDQWVHEEIALSRGSSGLGFSIAGGTDN
PHIGTDTSIYITKIIPGGAAYSDGRIQVNDIIVSVNDVSVVDVTHALAVEALKSAGDRVK
LNVKRKRPPAVPQTAEIDLVKGDKTLGFSIAGGIGNQHIPGDNGIYVTKIMDGGAAAVDG
RLSIGDKLLNVKTKTMNKNLENVSHEDAVATLKAITDRVVLTVQKAQHVVHSTSYLNQNN
SQSMNAMNNISTTGLDLNDSGRTHSPLPVLENSSSRHASTNVLATPRAVSHE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g13718.t4 CDD cd00992 PDZ_signaling 40 124 9.96696E-12
10 g13718.t4 CDD cd00992 PDZ_signaling 136 224 1.80341E-15
8 g13718.t4 Gene3D G3DSA:2.30.42.10 - 30 132 1.9E-32
7 g13718.t4 Gene3D G3DSA:2.30.42.10 - 133 238 9.9E-28
13 g13718.t4 MobiDBLite mobidb-lite consensus disorder prediction 268 292 -
3 g13718.t4 PANTHER PTHR23119 DISCS LARGE 7 249 1.1E-86
4 g13718.t4 PANTHER PTHR23119:SF51 DISKS LARGE 1 TUMOR SUPPRESSOR PROTEIN 7 249 1.1E-86
1 g13718.t4 Pfam PF00595 PDZ domain 41 123 6.4E-22
2 g13718.t4 Pfam PF00595 PDZ domain 137 224 1.2E-16
15 g13718.t4 ProSiteProfiles PS50106 PDZ domain profile. 40 127 22.898
14 g13718.t4 ProSiteProfiles PS50106 PDZ domain profile. 136 227 21.129
11 g13718.t4 SMART SM00228 pdz_new 48 127 1.8E-23
12 g13718.t4 SMART SM00228 pdz_new 144 227 2.3E-15
6 g13718.t4 SUPERFAMILY SSF50156 PDZ domain-like 31 128 6.18E-28
5 g13718.t4 SUPERFAMILY SSF50156 PDZ domain-like 131 228 2.63E-21

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:0005515 protein 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.

Raw TPM values