General information for g5660.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Disks large homolog 5.
Parent gene
- The parent gene g5660 is located on chr_2: 11109179..11110957 (- 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_2 | g5660 | g5660.t3 | isoform | g5660.t3 | 11109179 | 11110957 |
| chr_2 | g5660 | g5660.t3 | exon | g5660.t3.exon1 | 11109179 | 11110695 |
| chr_2 | g5660 | g5660.t3 | cds | g5660.t3.CDS1 | 11109181 | 11110695 |
| chr_2 | g5660 | g5660.t3 | exon | g5660.t3.exon2 | 11110790 | 11110957 |
| chr_2 | g5660 | g5660.t3 | cds | g5660.t3.CDS2 | 11110790 | 11110957 |
| chr_2 | g5660 | g5660.t3 | TSS | g5660.t3 | 11111175 | 11111175 |
| chr_2 | g5660 | g5660.t3 | TTS | g5660.t3 | NA | NA |
Sequences
>g5660.t3 Gene=g5660 Length=1685
ATGTCGAGAAATTGCGAATCATCAGTTTGTCCTCACTCATTAGAGTTTGAATTTCTCAAC
GAAAAGTATCGAGAAGTACTTGCTCAAAATAATGCATTGCGCGAGCAACTCAATTCTCGT
ATGCAAGATCCTATAAAATATCTAAAATTATGTGAAGAGCTGACTAAAAGGAACGAATTG
AAGCAGCAGCTGACTGAGACAGAATATGAAATATCACAAGTTTTGTCTGAACGTGGCACT
GTCCTCAAAGAGAATCAAAGTCTCTCTGATAAAAATGAAGCACTTCGTAAGGAAATGGAT
AAAATTTTGAAGTCGCGAGATGATTTTGTAAAAGAATGCGAGTCACTTAGACAAAAAATG
GAAACGATGAGAAGTCGGAGTGAATTTTTGCACTCAAATGAAGATCTTTTTAGCAGTAAA
GAAAAAATGGCAAAATATAATCTTGAAGTAGCAGAAATCGAAAGATTAAAGAAAATGCTT
GATAAATCTAATTCAGAATTGGCAAGAGCAATGCAAGAATCAAATATTGCAAAAGATCGT
CGTGATTGGGCAATTTCAGAACGAGAAAAAATTGTGCAAGAGAGAGACAGTGTAAGAAAT
TTATGTGATGAATTAAGAAAAGAGAGAGATACAGCTACATCGAAGTTATTGGCAGCAATC
AGGGATAAAGATGAGGCTTTTAAGAGAATCGAGCAGCTAAATGAGAAAATTGTTCAATTG
GGAAAAGTCAAGACAGAATCACATGAACTTCATAAGAAACCACGAGCCAATGATTATGAA
GAAGAGATTGAGGTCGATGTAAGTGGACATATTGGTATTAATCTTGATTGTGGAAACGAA
AATGGAGACTATAATGGAAATAGTTTCTATCCTCGTGTGCAATTTGTTGAACCTGGTTCA
ATATTTTATGGTAAATTACAGACAAATGATTATATTCAGTATGTAAATGGCATTGATTGT
TCAACATTGTCACAACGAATGCTATTCAAGCATATTAAGACAAGCTCACCGACTTGTAAA
ATGATTGTTAAACGCACAAAGCCAATTCCTAAAGGTATTTATAATGTAGAATTGCAACTA
AAGAATGGTAATCACGGAATAGTATTTGAGAATGGTATTTATATAGCAAATATTGAAAGT
AATTCACCAGCATATTATCAGCCATTACTTCTTAGTGTTGGTGATCGCGTGCTTCAAATA
AATGAAAAATCAGTCGAGGGAATCAAAAGCATAAATGAATTCAATCAAATTATGATGAAC
ATTAAGGGCAATGAGAAACTTTCATTGAAAATCATGAAGAGTGGTGGAGGTAATGATGCA
CCATCTTCATCAATGAGTAGTAAAGGCTGGAGTCGAATGACTAATCAGAGCACACAAACA
GACCATGGTGATTTGAAGAGGAGCATTGAAATGACTAATTTTCTTCCTATCGTTCCATTT
ATTCCTCCACCACCGCCTAGTGGTGATCAAGATTTATCAATTCTTAATACAAGTATCAGT
TCATCATCACCAAATTCTTCAAAATCATCATCTAAATTTACACCAAGAAATATGTTGCAA
AAAATTAGAGATGTTATTTCAAATACAAACAAGGAGAATCAAGAAAATGATGCAATTGCT
GTGCTTGATTCTGTTCTTGATAGTCAAGATTCTCTTGATGTAGCAGCACAAGAGAAATCA
AAAAA
>g5660.t3 Gene=g5660 Length=561
MSRNCESSVCPHSLEFEFLNEKYREVLAQNNALREQLNSRMQDPIKYLKLCEELTKRNEL
KQQLTETEYEISQVLSERGTVLKENQSLSDKNEALRKEMDKILKSRDDFVKECESLRQKM
ETMRSRSEFLHSNEDLFSSKEKMAKYNLEVAEIERLKKMLDKSNSELARAMQESNIAKDR
RDWAISEREKIVQERDSVRNLCDELRKERDTATSKLLAAIRDKDEAFKRIEQLNEKIVQL
GKVKTESHELHKKPRANDYEEEIEVDVSGHIGINLDCGNENGDYNGNSFYPRVQFVEPGS
IFYGKLQTNDYIQYVNGIDCSTLSQRMLFKHIKTSSPTCKMIVKRTKPIPKGIYNVELQL
KNGNHGIVFENGIYIANIESNSPAYYQPLLLSVGDRVLQINEKSVEGIKSINEFNQIMMN
IKGNEKLSLKIMKSGGGNDAPSSSMSSKGWSRMTNQSTQTDHGDLKRSIEMTNFLPIVPF
IPPPPPSGDQDLSILNTSISSSSPNSSKSSSKFTPRNMLQKIRDVISNTNKENQENDAIA
VLDSVLDSQDSLDVAAQEKSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g5660.t3 | CDD | cd00992 | PDZ_signaling | 262 | 344 | 2.97584E-7 |
| 13 | g5660.t3 | CDD | cd00992 | PDZ_signaling | 366 | 431 | 6.50884E-7 |
| 9 | g5660.t3 | Coils | Coil | Coil | 16 | 40 | - |
| 11 | g5660.t3 | Coils | Coil | Coil | 57 | 77 | - |
| 8 | g5660.t3 | Coils | Coil | Coil | 85 | 126 | - |
| 10 | g5660.t3 | Coils | Coil | Coil | 153 | 180 | - |
| 7 | g5660.t3 | Coils | Coil | Coil | 188 | 243 | - |
| 6 | g5660.t3 | Gene3D | G3DSA:2.30.42.10 | - | 251 | 347 | 4.5E-7 |
| 5 | g5660.t3 | Gene3D | G3DSA:2.30.42.10 | - | 350 | 436 | 7.1E-9 |
| 17 | g5660.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 434 | 463 | - |
| 16 | g5660.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 437 | 462 | - |
| 18 | g5660.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 499 | 518 | - |
| 2 | g5660.t3 | PANTHER | PTHR46360 | DISKS LARGE HOMOLOG 5 | 14 | 535 | 3.7E-76 |
| 1 | g5660.t3 | Pfam | PF00595 | PDZ domain | 355 | 432 | 5.6E-7 |
| 20 | g5660.t3 | ProSiteProfiles | PS50106 | PDZ domain profile. | 260 | 347 | 8.607 |
| 19 | g5660.t3 | ProSiteProfiles | PS50106 | PDZ domain profile. | 355 | 435 | 11.099 |
| 15 | g5660.t3 | SMART | SM00228 | pdz_new | 269 | 347 | 0.27 |
| 14 | g5660.t3 | SMART | SM00228 | pdz_new | 363 | 435 | 1.8E-4 |
| 3 | g5660.t3 | SUPERFAMILY | SSF50156 | PDZ domain-like | 262 | 347 | 2.89E-9 |
| 4 | g5660.t3 | SUPERFAMILY | SSF50156 | PDZ domain-like | 350 | 435 | 4.34E-10 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5660/g5660.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5660.t3.fa.iupred3.txt does not exist
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. There were no conditions that were differentially expressed