Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Disks large homolog 5.

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_2 g5660 g5660.t2 isoform g5660.t2 11108874 11110957
chr_2 g5660 g5660.t2 exon g5660.t2.exon1 11108874 11110698
chr_2 g5660 g5660.t2 cds g5660.t2.CDS1 11108875 11110698
chr_2 g5660 g5660.t2 exon g5660.t2.exon2 11110790 11110957
chr_2 g5660 g5660.t2 cds g5660.t2.CDS2 11110790 11110957
chr_2 g5660 g5660.t2 TSS g5660.t2 11111175 11111175
chr_2 g5660 g5660.t2 TTS g5660.t2 NA NA

Sequences

>g5660.t2 Gene=g5660 Length=1993
ATGTCGAGAAATTGCGAATCATCAGTTTGTCCTCACTCATTAGAGTTTGAATTTCTCAAC
GAAAAGTATCGAGAAGTACTTGCTCAAAATAATGCATTGCGCGAGCAACTCAATTCTCGT
ATGCAAGATCCTATAAAATATCTAAAATTATGTGAAGAGCTGACTAAAGAGAGGAACGAA
TTGAAGCAGCAGCTGACTGAGACAGAATATGAAATATCACAAGTTTTGTCTGAACGTGGC
ACTGTCCTCAAAGAGAATCAAAGTCTCTCTGATAAAAATGAAGCACTTCGTAAGGAAATG
GATAAAATTTTGAAGTCGCGAGATGATTTTGTAAAAGAATGCGAGTCACTTAGACAAAAA
ATGGAAACGATGAGAAGTCGGAGTGAATTTTTGCACTCAAATGAAGATCTTTTTAGCAGT
AAAGAAAAAATGGCAAAATATAATCTTGAAGTAGCAGAAATCGAAAGATTAAAGAAAATG
CTTGATAAATCTAATTCAGAATTGGCAAGAGCAATGCAAGAATCAAATATTGCAAAAGAT
CGTCGTGATTGGGCAATTTCAGAACGAGAAAAAATTGTGCAAGAGAGAGACAGTGTAAGA
AATTTATGTGATGAATTAAGAAAAGAGAGAGATACAGCTACATCGAAGTTATTGGCAGCA
ATCAGGGATAAAGATGAGGCTTTTAAGAGAATCGAGCAGCTAAATGAGAAAATTGTTCAA
TTGGGAAAAGTCAAGACAGAATCACATGAACTTCATAAGAAACCACGAGCCAATGATTAT
GAAGAAGAGATTGAGGTCGATGTAAGTGGACATATTGGTATTAATCTTGATTGTGGAAAC
GAAAATGGAGACTATAATGGAAATAGTTTCTATCCTCGTGTGCAATTTGTTGAACCTGGT
TCAATATTTTATGGTAAATTACAGACAAATGATTATATTCAGTATGTAAATGGCATTGAT
TGTTCAACATTGTCACAACGAATGCTATTCAAGCATATTAAGACAAGCTCACCGACTTGT
AAAATGATTGTTAAACGCACAAAGCCAATTCCTAAAGGTATTTATAATGTAGAATTGCAA
CTAAAGAATGGTAATCACGGAATAGTATTTGAGAATGGTATTTATATAGCAAATATTGAA
AGTAATTCACCAGCATATTATCAGCCATTACTTCTTAGTGTTGGTGATCGCGTGCTTCAA
ATAAATGAAAAATCAGTCGAGGGAATCAAAAGCATAAATGAATTCAATCAAATTATGATG
AACATTAAGGGCAATGAGAAACTTTCATTGAAAATCATGAAGAGTGGTGGAGGTAATGAT
GCACCATCTTCATCAATGAGTAGTAAAGGCTGGAGTCGAATGACTAATCAGAGCACACAA
ACAGACCATGGTGATTTGAAGAGGAGCATTGAAATGACTAATTTTCTTCCTATCGTTCCA
TTTATTCCTCCACCACCGCCTAGTGGTGATCAAGATTTATCAATTCTTAATACAAGTATC
AGTTCATCATCACCAAATTCTTCAAAATCATCATCTAAATTTACACCAAGAAATATGTTG
CAAAAAATTAGAGATGTTATTTCAAATACAAACAAGGAGAATCAAGAAAATGATGCAATT
GCTGTGCTTGATTCTGTTCTTGATAGTCAAGATTCTCTTGATGTAGCAGCACAAGAGAAA
TCAAAAAAGAGCAAATATAAAAAAAATATTGCCAAGAGTTGGCCTAGAGCTGCAATGGCA
CTTCATGATAGTGGCAAATCTCATTCTGGCACAGTAGTTTTCAATAAAAAGAAAGAAAGA
CCACGATTATATCTTATTCCAACTGATGATCAACCAAGTCAAGATGATCGAAAAGATCCA
GTTGCCGAAAAGCTTTCTGCTGAACAACAAAAAGCAGTTGATACTTTATTTCAACCACCG
AAACCTCCAATCGTCACTCATTCAAATCGAAATTCAAATCCAGTTCCAAAATCACATTTA
TTCATGCAAAACA

>g5660.t2 Gene=g5660 Length=664
MSRNCESSVCPHSLEFEFLNEKYREVLAQNNALREQLNSRMQDPIKYLKLCEELTKERNE
LKQQLTETEYEISQVLSERGTVLKENQSLSDKNEALRKEMDKILKSRDDFVKECESLRQK
METMRSRSEFLHSNEDLFSSKEKMAKYNLEVAEIERLKKMLDKSNSELARAMQESNIAKD
RRDWAISEREKIVQERDSVRNLCDELRKERDTATSKLLAAIRDKDEAFKRIEQLNEKIVQ
LGKVKTESHELHKKPRANDYEEEIEVDVSGHIGINLDCGNENGDYNGNSFYPRVQFVEPG
SIFYGKLQTNDYIQYVNGIDCSTLSQRMLFKHIKTSSPTCKMIVKRTKPIPKGIYNVELQ
LKNGNHGIVFENGIYIANIESNSPAYYQPLLLSVGDRVLQINEKSVEGIKSINEFNQIMM
NIKGNEKLSLKIMKSGGGNDAPSSSMSSKGWSRMTNQSTQTDHGDLKRSIEMTNFLPIVP
FIPPPPPSGDQDLSILNTSISSSSPNSSKSSSKFTPRNMLQKIRDVISNTNKENQENDAI
AVLDSVLDSQDSLDVAAQEKSKKSKYKKNIAKSWPRAAMALHDSGKSHSGTVVFNKKKER
PRLYLIPTDDQPSQDDRKDPVAEKLSAEQQKAVDTLFQPPKPPIVTHSNRNSNPVPKSHL
FMQN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g5660.t2 CDD cd00992 PDZ_signaling 263 345 2.26728E-7
12 g5660.t2 CDD cd00992 PDZ_signaling 367 432 4.81529E-7
8 g5660.t2 Coils Coil Coil 16 40 -
11 g5660.t2 Coils Coil Coil 51 78 -
7 g5660.t2 Coils Coil Coil 86 127 -
10 g5660.t2 Coils Coil Coil 154 181 -
9 g5660.t2 Coils Coil Coil 189 244 -
6 g5660.t2 Gene3D G3DSA:2.30.42.10 - 252 348 5.8E-7
5 g5660.t2 Gene3D G3DSA:2.30.42.10 - 351 437 9.1E-9
20 g5660.t2 MobiDBLite mobidb-lite consensus disorder prediction 435 464 -
16 g5660.t2 MobiDBLite mobidb-lite consensus disorder prediction 438 463 -
17 g5660.t2 MobiDBLite mobidb-lite consensus disorder prediction 606 664 -
19 g5660.t2 MobiDBLite mobidb-lite consensus disorder prediction 606 625 -
18 g5660.t2 MobiDBLite mobidb-lite consensus disorder prediction 642 664 -
2 g5660.t2 PANTHER PTHR46360 DISKS LARGE HOMOLOG 5 15 600 3.4E-78
1 g5660.t2 Pfam PF00595 PDZ domain 356 433 7.2E-7
21 g5660.t2 ProSiteProfiles PS50106 PDZ domain profile. 261 348 8.607
22 g5660.t2 ProSiteProfiles PS50106 PDZ domain profile. 356 436 11.099
14 g5660.t2 SMART SM00228 pdz_new 270 348 0.27
15 g5660.t2 SMART SM00228 pdz_new 364 436 1.8E-4
3 g5660.t2 SUPERFAMILY SSF50156 PDZ domain-like 263 348 3.68E-9
4 g5660.t2 SUPERFAMILY SSF50156 PDZ domain-like 351 436 5.65E-10

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5660/g5660.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5660.t2.fa.iupred3.txt does not exist

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. There were no conditions that were differentially expressed