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.t12 TSS g13718.t12 32012596 32012596
chr_1 g13718 g13718.t12 isoform g13718.t12 32013125 32019114
chr_1 g13718 g13718.t12 exon g13718.t12.exon1 32013125 32013211
chr_1 g13718 g13718.t12 cds g13718.t12.CDS1 32013125 32013211
chr_1 g13718 g13718.t12 exon g13718.t12.exon2 32016441 32016464
chr_1 g13718 g13718.t12 cds g13718.t12.CDS2 32016441 32016464
chr_1 g13718 g13718.t12 exon g13718.t12.exon3 32016531 32016592
chr_1 g13718 g13718.t12 cds g13718.t12.CDS3 32016531 32016592
chr_1 g13718 g13718.t12 exon g13718.t12.exon4 32016657 32016870
chr_1 g13718 g13718.t12 cds g13718.t12.CDS4 32016657 32016870
chr_1 g13718 g13718.t12 exon g13718.t12.exon5 32016937 32017011
chr_1 g13718 g13718.t12 cds g13718.t12.CDS5 32016937 32017011
chr_1 g13718 g13718.t12 exon g13718.t12.exon6 32017078 32017526
chr_1 g13718 g13718.t12 cds g13718.t12.CDS6 32017078 32017526
chr_1 g13718 g13718.t12 exon g13718.t12.exon7 32017759 32017813
chr_1 g13718 g13718.t12 cds g13718.t12.CDS7 32017759 32017813
chr_1 g13718 g13718.t12 exon g13718.t12.exon8 32017874 32017909
chr_1 g13718 g13718.t12 cds g13718.t12.CDS8 32017874 32017909
chr_1 g13718 g13718.t12 exon g13718.t12.exon9 32018198 32018752
chr_1 g13718 g13718.t12 cds g13718.t12.CDS9 32018198 32018752
chr_1 g13718 g13718.t12 exon g13718.t12.exon10 32019009 32019114
chr_1 g13718 g13718.t12 cds g13718.t12.CDS10 32019009 32019113
chr_1 g13718 g13718.t12 TTS g13718.t12 NA NA

Sequences

>g13718.t12 Gene=g13718 Length=1663
ATGACGACACGAAAGAAGAATAAAAATCAACAGAAGGAGACTGGTGGATTTATAAAAAAG
GTTTCATCATTATTTAATTTAGATACGGCATCAGCAGGAACGGATGCAAAAGTCAATGGA
GATGATCAATGGGTGCATGAGGAAATCGCTTTATCACGAGGCTCAAGTGGACTCGGATTC
AGTATAGCAGGAGGCACTGATAATCCACACATCGGGACTGATACATCAATTTATATCACA
AAAATAATTCCCGGTGGAGCCGCATATTCAGACGGTCGTATTCAAGTAAATGACATTATT
GTATCAGTCAATGATGTATCAGTTGTTGATGTTACGCATGCACTTGCTGTTGAAGCGCTT
AAAAGTGCTGGTGATAGAGTCAAATTGAATGTTAAAAGAAAACGTCCACCAGCCGTTCCA
CAAACTGCTGAAATCGATCTCGTAAAGGGTGACAAAACATTGGGTTTTAGTATAGCAGGA
GGCATAGGAAATCAACATATTCCAGGTGATAATGGAATTTATGTTACAAAAATAATGGAT
GGTGGAGCAGCAGCAGTTGATGGTCGACTAAGTATTGGCGACAAATTGCTCAATGTTAAA
ACAAAGACGATGAACAAAAATTTAGAGAATGTTTCACACGAAGATGCTGTTGCAACGCTT
AAAGCAATTACTGATCGTGTGGTTTTAACAGTACAGAAAGCTCAACATGTTGTTCATAGC
ACATCATACCTTAATCAAAACAATTCACAATCAATGAATGCAATGAATAATATTAGTACC
ACAGGTTTAGACCTTAATGATAGCGGAAGAACTCATTCACCTCTGCCCGTCTTGGAAAAT
TCATCATCGCGACATGCATCTACAAATGTTTTGGCAACGCCGCGTGCCGTCAGTCATGAA
GATATCACAAGAGAACCGCGAACTATAGTGATTCATAAAGGCAAGACGGCATCAAAAGCT
TTAGGCTTGAATATTGTCGGCGGCGAAGATGGCCAGGTAGTTGGAATTTATGTATCATTT
ATACTGGCTGGTGGTCCTGCTGATCTTAGTGGTGACTTGAAACGTGGCGATCAATTGCTA
TCGGTTAATGGTATTAATTTGCGAAATGCAACGCATGAAGAAGCAGCGGCTGCACTTAAA
AATTCTGGTGATACAGTTACACTCGTGGCTCAATATCGACCCGAAGACTATAATCGATTT
GAGGCACGAATTCATGAATTAAAGCAGCAAGCGGCAGCAGCTGTACAATCTGGCACAGGA
ACACTCTTGCGTACATCACAAAAACGTTCACTCTATGTGAGAGCTTTGTTCGACTATGAT
CCAAATCGAGATGACGGATTACCAACACGTGGTCTGCCATTTAAGCATGGCGATATTTTA
CATGTAACGAATGCATCCGATGATGAGTGGTGGCAAGCGAGACGCGTCATTGGAGATGGT
GAAGAAGATAATATGGGTATTGTGCCATCAAAAAGACGCTGGGAGAGAAAACAAAGAGCG
AGGGATCGTAGTGTTAAATTTCAAGGATACCAAGCACCCGCAAATGTTGCAGAAAAGACG
TCAACATTGGACCGAAAAAAGAAAAATTTCTCATTTAGTCGAAGATTCCCGTTCATGAAG
AGTCGTGAAGATGGCAAGAACGAGGATGGATCAGATCAAGAAC

>g13718.t12 Gene=g13718 Length=554
MTTRKKNKNQQKETGGFIKKVSSLFNLDTASAGTDAKVNGDDQWVHEEIALSRGSSGLGF
SIAGGTDNPHIGTDTSIYITKIIPGGAAYSDGRIQVNDIIVSVNDVSVVDVTHALAVEAL
KSAGDRVKLNVKRKRPPAVPQTAEIDLVKGDKTLGFSIAGGIGNQHIPGDNGIYVTKIMD
GGAAAVDGRLSIGDKLLNVKTKTMNKNLENVSHEDAVATLKAITDRVVLTVQKAQHVVHS
TSYLNQNNSQSMNAMNNISTTGLDLNDSGRTHSPLPVLENSSSRHASTNVLATPRAVSHE
DITREPRTIVIHKGKTASKALGLNIVGGEDGQVVGIYVSFILAGGPADLSGDLKRGDQLL
SVNGINLRNATHEEAAAALKNSGDTVTLVAQYRPEDYNRFEARIHELKQQAAAAVQSGTG
TLLRTSQKRSLYVRALFDYDPNRDDGLPTRGLPFKHGDILHVTNASDDEWWQARRVIGDG
EEDNMGIVPSKRRWERKQRARDRSVKFQGYQAPANVAEKTSTLDRKKKNFSFSRRFPFMK
SREDGKNEDGSDQE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g13718.t12 CDD cd00992 PDZ_signaling 48 132 1.13434E-11
19 g13718.t12 CDD cd00992 PDZ_signaling 144 232 1.48022E-15
18 g13718.t12 CDD cd00992 PDZ_signaling 306 389 1.72149E-23
16 g13718.t12 CDD cd11861 SH3_DLG-like 432 492 2.51127E-39
15 g13718.t12 Coils Coil Coil 397 417 -
14 g13718.t12 Gene3D G3DSA:2.30.42.10 - 30 138 6.8E-32
13 g13718.t12 Gene3D G3DSA:2.30.42.10 - 141 244 2.9E-27
12 g13718.t12 Gene3D G3DSA:2.30.42.10 - 303 423 2.4E-35
11 g13718.t12 Gene3D G3DSA:2.30.30.40 SH3 Domains 424 526 3.4E-34
24 g13718.t12 MobiDBLite mobidb-lite consensus disorder prediction 534 554 -
5 g13718.t12 PANTHER PTHR23119 DISCS LARGE 28 541 4.4E-183
6 g13718.t12 PANTHER PTHR23119:SF5 DISKS LARGE HOMOLOG 1 28 541 4.4E-183
4 g13718.t12 Pfam PF00595 PDZ domain 49 131 1.9E-21
2 g13718.t12 Pfam PF00595 PDZ domain 145 232 3.6E-16
3 g13718.t12 Pfam PF00595 PDZ domain 317 390 1.1E-18
1 g13718.t12 Pfam PF00018 SH3 domain 434 490 2.0E-8
27 g13718.t12 ProSiteProfiles PS50106 PDZ domain profile. 48 135 22.898
26 g13718.t12 ProSiteProfiles PS50106 PDZ domain profile. 144 235 21.129
28 g13718.t12 ProSiteProfiles PS50106 PDZ domain profile. 308 394 22.858
25 g13718.t12 ProSiteProfiles PS50002 Src homology 3 (SH3) domain profile. 428 498 18.476
20 g13718.t12 SMART SM00228 pdz_new 56 135 1.8E-23
22 g13718.t12 SMART SM00228 pdz_new 152 235 2.3E-15
21 g13718.t12 SMART SM00228 pdz_new 319 394 2.6E-22
23 g13718.t12 SMART SM00326 SH3_2 431 497 5.4E-6
9 g13718.t12 SUPERFAMILY SSF50156 PDZ domain-like 41 136 2.37E-27
8 g13718.t12 SUPERFAMILY SSF50156 PDZ domain-like 138 236 7.89E-21
7 g13718.t12 SUPERFAMILY SSF50156 PDZ domain-like 295 400 1.01E-30
10 g13718.t12 SUPERFAMILY SSF50044 SH3-domain 425 515 3.54E-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

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.

Raw TPM values