Gene loci information

Transcript annotation

  • This transcript has been annotated as Patj-like 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_3 g791 g791.t2 TSS g791.t2 6054813 6054813
chr_3 g791 g791.t2 isoform g791.t2 6055427 6058520
chr_3 g791 g791.t2 exon g791.t2.exon1 6055427 6056186
chr_3 g791 g791.t2 exon g791.t2.exon2 6056277 6056975
chr_3 g791 g791.t2 cds g791.t2.CDS1 6056543 6056975
chr_3 g791 g791.t2 exon g791.t2.exon3 6057137 6057258
chr_3 g791 g791.t2 cds g791.t2.CDS2 6057137 6057258
chr_3 g791 g791.t2 exon g791.t2.exon4 6057316 6057793
chr_3 g791 g791.t2 cds g791.t2.CDS3 6057316 6057793
chr_3 g791 g791.t2 exon g791.t2.exon5 6057872 6058520
chr_3 g791 g791.t2 cds g791.t2.CDS4 6057872 6058011
chr_3 g791 g791.t2 TTS g791.t2 NA NA

Sequences

>g791.t2 Gene=g791 Length=2708
TTCCATCAGCTCAAATATCACCATCATCACGCTCTCCTAATTCTCCATCAAAATATAATG
GCGGAGAACAATATCATTCACTTGACCGTAAAAAGAATCAACACGATATCGAATTAATGG
CGCGTGAACAACAATCAACAGAACGTCCACAATCGGTCATTAGCAACAATTCTAAACAAA
ATGCTGATATTTTATCAAGTGAATGGGCACAAGTGCAAGCAATTGAGCTTGTTAATGATG
GTACGGGTCTTGGCTTTGGAATTGTTGGTGCTAAAACATCGGGTGTAATTGTAAAAACAA
TTTTGGCGGGTGGTGTTGCAGATAGAGATGGTCGTTTAATGTCAGGCGATCATATTTTAC
AAATTGGTGAAGTAAATCTTTTTGATATGGTATCAGAACAAGTTGCATCTGTTTTACGAC
AGTCAGGAACAGTTGTGCGCTTGGTTGTTGCACGAGCAGTTGATCCGATTAAAACAAATC
AAGATGTTGATGGAGATTCTGCCATTGTCCCTTCTCGTCTTCTTTCTGATGCACAAGAAC
TTCAACGTTATTTAATTGCCGCTGGTTACCCTGAAATTTTTGGTTTTATTCCTTCTTCAA
CACCTTCATCACCTGCTAATCAAAATCAAAAGTTTACATTTAAAAATGAAAATGAAATAA
ATTTAGAACTGCCAGAAACTGAAAAGTTTACAGTTGAGTTAAGAAAAGACTCTCATGGTT
TGGGTATAACTATAGCTGGTTACGTTTGTGAAAAAGGCATAAGAATTGAGTGGAATTTTT
GTGAAAAGTGTTGCACCGGGAAGTGCTGCAGACTGTGGAAAAATTCAAGTTAATGATAGA
ATCATTGAAGTTGATGGACAATCGTTGCAAGGTTTTTCTAATCATCAAGCAGTAGATGTG
CTCAAACAGAGTGGAAATGTAGTTAAATTGGTGCTTGAACGCTATTTGCGTGGACTGAAA
TTTGAGCAGTTACAACAAGCAATTGCAGCTAACGAATTAATCAAACCTACAACTCCGGTT
AAACCAATGACTTCTGCATCACCATCTTCTCGTCGCCAGTCATTTAATGAAGATCGTTCT
AAATTTTTAATGGCAAGAGATTCACTTGAAACCAGAAATCAAAAAGATTCAATCAACAAC
GATTATCAAGGACAAGAATCAAGTGTTGACAATGAGGAAGATTTAATTAATGAATTGAGT
AATCTACATATGCATTCAACACCTAAATCTCAACACAAATATTATGTTGATCCTAAACTT
ACTAAAGATCAAGAGGCTGCAATAATTAAAAAGTGGAAATCAATTCTTGGTTCAGATGAT
GATAGTAAAATTATTGTCGCTCAAATAAGAAAATTTGCTGCTTCTAGTGGTCTTGGCATT
AGTCTTGAGGGAACAGTTGATATTGAAAGTGGTGTAGAAGTAAGACCTCATCATTACATT
CGTTCAATTTTACCTGAAGGTCCTGTTGGACAAAATAAGCTTTTGCGATCTGGTGATGAA
CTTCTTGAGGTCAATAATCAGCGACTTCTTGGTATGAATCATATGCAAGTCGTATCGATT
TTAAAAGAACTGCCACAAGATGTTCGAATGGTTTGTCGTAGAGGAATGACTGAAATAATT
TCATTCACTGAAGACAATTATCGTAATGCTTTGATCGATCATGGACATGCAAATGATAGT
AATAATTCAAATACATCACTGCTTTCTGATAGATTAGTCAAGGCAAAGAGTGATGGCAGC
TTAGCCACAGCAGTTGGAAATGGCGATGGTTTCATAAAAATGAAATCTCGATCATTAGAA
CCATTAACGGGATTAGCAATGTGGAGCAGCCAATCTCAAATTATAGAATTGGTGAAGGGT
GAACGTGGATTAGGTTTCAGTATTTTAGACTATCAAGATCCATTAGATCCAAATGACACA
TTGATTGTCATTCGCTCTCTTGTGCCTGGTGGCGTTGCACAGTTGGACGGTAGATTAATT
CCAGGCGATAGATTATTATTTGTTAATGACACTCGTTTAGAAAATGCATCACTTGATCAA
GCTGTTCAAGCTCTAAAAGGTGCACCGAAAGGAATAGTGAAAATCGGAATTGCAAAACCT
TTACCAATGACTGATTTTATTGAAAGCAAAAATTATTCGGCCACTGAGAGTTTTCAAGAT
GAACTAAAACTTAAGAAACCTGATCTTATTACAGAATGAGAAACACAGCAGCTAATAAAA
CTTCTCTCATCTATTCATCACTTTATTCAATTTATTGATCGACATAACAGGAAGAATCAT
GTCGATAAAAGTGTTATTTAAGCACGCATTTCTTTTAACATTCCAATGTTACTTTCATTA
TTGTTTGTGCAATTATGTTAAAATCCATCTTCCATTTCTTAATTTATAAGAAGGCATTAA
CTTAATCAAAAATAACGAAAAAGTTGTTTAGACGAAAAATGACATTACTTAATATTATCT
AGATAAAAGTGAAGTATTTTTAGAGAATTTAGTATATTTATCGTGCACGACACATACCTT
TTGCCATTTCACAAAGTTTATATTTCTTTATGTTCAGATTATTTTTTATATACACATAAC
TATCCTACATATATGAATGTAGAATTTTTAATTAAAATGACATTAACTAAAAATATATTG
TAATGTTTTTTGTGAATTGAGACAAATGTTAATTAAAGACAAATATATATATATATTTCA
TTTATTTA

>g791.t2 Gene=g791 Length=390
MTSASPSSRRQSFNEDRSKFLMARDSLETRNQKDSINNDYQGQESSVDNEEDLINELSNL
HMHSTPKSQHKYYVDPKLTKDQEAAIIKKWKSILGSDDDSKIIVAQIRKFAASSGLGISL
EGTVDIESGVEVRPHHYIRSILPEGPVGQNKLLRSGDELLEVNNQRLLGMNHMQVVSILK
ELPQDVRMVCRRGMTEIISFTEDNYRNALIDHGHANDSNNSNTSLLSDRLVKAKSDGSLA
TAVGNGDGFIKMKSRSLEPLTGLAMWSSQSQIIELVKGERGLGFSILDYQDPLDPNDTLI
VIRSLVPGGVAQLDGRLIPGDRLLFVNDTRLENASLDQAVQALKGAPKGIVKIGIAKPLP
MTDFIESKNYSATESFQDELKLKKPDLITE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g791.t2 CDD cd00992 PDZ_signaling 102 191 1.61576E-14
10 g791.t2 CDD cd00992 PDZ_signaling 273 351 9.39757E-15
8 g791.t2 Gene3D G3DSA:2.30.42.10 - 94 195 4.2E-21
7 g791.t2 Gene3D G3DSA:2.30.42.10 - 258 359 7.1E-36
13 g791.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 48 -
14 g791.t2 MobiDBLite mobidb-lite consensus disorder prediction 12 32 -
3 g791.t2 PANTHER PTHR19964 MULTIPLE PDZ DOMAIN PROTEIN 41 377 3.2E-95
4 g791.t2 PANTHER PTHR19964:SF44 PATJ HOMOLOG 41 377 3.2E-95
2 g791.t2 Pfam PF00595 PDZ domain 112 189 1.3E-9
1 g791.t2 Pfam PF00595 PDZ domain 275 355 1.1E-13
15 g791.t2 ProSiteProfiles PS50106 PDZ domain profile. 104 194 15.32
16 g791.t2 ProSiteProfiles PS50106 PDZ domain profile. 272 350 17.129
12 g791.t2 SMART SM00228 pdz_new 114 194 9.7E-15
11 g791.t2 SMART SM00228 pdz_new 280 359 3.9E-17
6 g791.t2 SUPERFAMILY SSF50156 PDZ domain-like 104 196 3.19E-19
5 g791.t2 SUPERFAMILY SSF50156 PDZ domain-like 259 363 2.8E-23

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