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.t13 isoform g13718.t13 32017090 32019114
chr_1 g13718 g13718.t13 exon g13718.t13.exon1 32017090 32017526
chr_1 g13718 g13718.t13 cds g13718.t13.CDS1 32017150 32017526
chr_1 g13718 g13718.t13 exon g13718.t13.exon2 32017759 32017813
chr_1 g13718 g13718.t13 cds g13718.t13.CDS2 32017759 32017813
chr_1 g13718 g13718.t13 exon g13718.t13.exon3 32018198 32018752
chr_1 g13718 g13718.t13 cds g13718.t13.CDS3 32018198 32018752
chr_1 g13718 g13718.t13 exon g13718.t13.exon4 32019009 32019114
chr_1 g13718 g13718.t13 cds g13718.t13.CDS4 32019009 32019113
chr_1 g13718 g13718.t13 TSS g13718.t13 NA NA
chr_1 g13718 g13718.t13 TTS g13718.t13 NA NA

Sequences

>g13718.t13 Gene=g13718 Length=1153
GCAGGAGGCATAGGAAATCAACATATTCCAGGTGATAATGGAATTTATGTTACAAAAATA
ATGGATGGTGGAGCAGCAGCAGTTGATGGTCGACTAAGTATTGGCGACAAATTGCTCAAT
GTTAAAACAAAGACGATGAACAAAAATTTAGAGAATGTTTCACACGAAGATGCTGTTGCA
ACGCTTAAAGCAATTACTGATCGTGTGGTTTTAACAGTACAGAAAGCTCAACATGTTGTT
CATAGCACATCATACCTTAATCAAAACAATTCACAATCAATGAATGCAATGAATAATATT
AGTACCACAGGTTTAGACCTTAATGATAGCGGAAGAACTCATTCACCTCTGCCCGTCTTG
GAAAATTCATCATCGCGACATGCATCTACAAATGTTTTGGCAACGCCGCGTGCCGTCAGT
CATGAAGATATCACAAGAGAACCGCGAACTATAGTGATTCATAAAGGCAAGACGGCATCA
AAAGCTTTAGGCGGAATTTATGTATCATTTATACTGGCTGGTGGTCCTGCTGATCTTAGT
GGTGACTTGAAACGTGGCGATCAATTGCTATCGGTTAATGGTATTAATTTGCGAAATGCA
ACGCATGAAGAAGCAGCGGCTGCACTTAAAAATTCTGGTGATACAGTTACACTCGTGGCT
CAATATCGACCCGAAGACTATAATCGATTTGAGGCACGAATTCATGAATTAAAGCAGCAA
GCGGCAGCAGCTGTACAATCTGGCACAGGAACACTCTTGCGTACATCACAAAAACGTTCA
CTCTATGTGAGAGCTTTGTTCGACTATGATCCAAATCGAGATGACGGATTACCAACACGT
GGTCTGCCATTTAAGCATGGCGATATTTTACATGTAACGAATGCATCCGATGATGAGTGG
TGGCAAGCGAGACGCGTCATTGGAGATGGTGAAGAAGATAATATGGGTATTGTGCCATCA
AAAAGACGCTGGGAGAGAAAACAAAGAGCGAGGGATCGTAGTGTTAAATTTCAAGGATAC
CAAGCACCCGCAAATGTTGCAGAAAAGACGTCAACATTGGACCGAAAAAAGAAAAATTTC
TCATTTAGTCGAAGATTCCCGTTCATGAAGAGTCGTGAAGATGGCAAGAACGAGGATGGA
TCAGATCAAGAAC

>g13718.t13 Gene=g13718 Length=364
MDGGAAAVDGRLSIGDKLLNVKTKTMNKNLENVSHEDAVATLKAITDRVVLTVQKAQHVV
HSTSYLNQNNSQSMNAMNNISTTGLDLNDSGRTHSPLPVLENSSSRHASTNVLATPRAVS
HEDITREPRTIVIHKGKTASKALGGIYVSFILAGGPADLSGDLKRGDQLLSVNGINLRNA
THEEAAAALKNSGDTVTLVAQYRPEDYNRFEARIHELKQQAAAAVQSGTGTLLRTSQKRS
LYVRALFDYDPNRDDGLPTRGLPFKHGDILHVTNASDDEWWQARRVIGDGEEDNMGIVPS
KRRWERKQRARDRSVKFQGYQAPANVAEKTSTLDRKKKNFSFSRRFPFMKSREDGKNEDG
SDQE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g13718.t13 CDD cd00992 PDZ_signaling 1 54 7.43676E-8
15 g13718.t13 CDD cd00992 PDZ_signaling 128 199 3.89227E-20
13 g13718.t13 CDD cd11861 SH3_DLG-like 242 302 1.87717E-40
12 g13718.t13 Coils Coil Coil 207 227 -
11 g13718.t13 Gene3D G3DSA:2.30.42.10 - 1 53 7.2E-14
10 g13718.t13 Gene3D G3DSA:2.30.42.10 - 125 233 2.5E-28
9 g13718.t13 Gene3D G3DSA:2.30.30.40 SH3 Domains 234 337 1.6E-34
4 g13718.t13 PANTHER PTHR23119 DISCS LARGE 2 351 7.5E-105
5 g13718.t13 PANTHER PTHR23119:SF5 DISKS LARGE HOMOLOG 1 2 351 7.5E-105
2 g13718.t13 Pfam PF00595 PDZ domain 1 54 6.5E-7
3 g13718.t13 Pfam PF00595 PDZ domain 131 200 3.5E-16
1 g13718.t13 Pfam PF00018 SH3 domain 244 300 1.2E-8
21 g13718.t13 ProSiteProfiles PS50106 PDZ domain profile. 1 57 14.074
20 g13718.t13 ProSiteProfiles PS50106 PDZ domain profile. 118 204 18.275
19 g13718.t13 ProSiteProfiles PS50002 Src homology 3 (SH3) domain profile. 238 308 18.476
17 g13718.t13 SMART SM00228 pdz_new 1 57 2.0
16 g13718.t13 SMART SM00228 pdz_new 127 204 4.0E-19
18 g13718.t13 SMART SM00326 SH3_2 241 307 5.4E-6
6 g13718.t13 SUPERFAMILY SSF50156 PDZ domain-like 2 61 1.6E-9
7 g13718.t13 SUPERFAMILY SSF50156 PDZ domain-like 117 210 8.15E-26
8 g13718.t13 SUPERFAMILY SSF50044 SH3-domain 235 325 1.71E-25

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