GgaINT0041687 @ galGal3
Intron Retention
Gene
ENSGALG00000006626 | PDE6C
Description
NA
Coordinates
chr6:21453054-21457426:-
Coord C1 exon
chr6:21457273-21457426
Coord A exon
chr6:21454677-21457272
Coord C2 exon
chr6:21453054-21454676
Length
2596 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAAA
5' ss Score
2.7
3' ss Seq
TTTTCTTCTCTGTTTTTTAGCTG
3' ss Score
11.11
Exon sequences
Seq C1 exon
GAATTCTCAAGATTTCACAAGGAAATTACACCCATGTTCGATGGTCTTCAAAACAACAGGGTTGAATGGAAAACAAGAGCTGATGAATACGAAGAGAAGATGAAAGTTATTGAGGAACAAAAGAAAAAGGAAGAAGAAGCAGCTGCCAAAAAAG
Seq A exon
GTTAAATAACTTCTAATTTTTTCATTCATATATTCATATTGGCAGTTCTTCTCTCTGTAATTCACACACATGGTAAACTTTACAATATTCTTTACACTAACAGTATCTGAGTTATGAATTAGCCGAATTAGCTTTGTCTTTATTTGGAAGAGGAGTAACCTTTCAAAATTACACAAATCCAAAACACTGACTTATTTTCTTAGCTGAACAATTACAGAAAACATGACCATCACAGAAGTGAAGTGAATGTAAAATTTATTTTGTCTTAAGACATAAAACTGAACATAATTAACCAACTCTATTAATCTGTGAATGCTACTATCATCTGAAATACGAGTTGTATCAAAATTCTGCATGGTATCAGCCTCAAATGTATTCCAGTGTTTTGTTTAAGCTGAAAATAAAAATATAAGGAGGAGATGAGAATGGAGTGTGCATTTGGAACAACAAAAGCCCCACTTCTCTTCCAAATTTGAGATAAAGCTTTTGGCTTTAGTTTCCTACCATCAGTTTCTTGGCCAAAATATGTTCTCTCATAGTACAAATCTAACACTAATCTTTCTAAGACCTAAAATTGAACGTATGGTTTTGCATATGATGAACAAAATGACAATCTGAGTTTTATATAAACTGAAAACCTCAAGTGTAACTCAAATGTAAGAGTGAAATTAGTTACATTTTTTATTCTGTATTGCATTTGAAACATCAGCTCTGCTGATCAGCTGAAGTGAAAGACGTGATTTTTAGAGAATGATTTATTGTCAGCTAGTTTAAAGAAAAGTTTATTCTAATCATGTATTTTGCATCTTTAAAACATAAAAGAGTACACAATAATTTATTTGTTAATCAGTGTCTGTGGGAAATAGGTGAGTATTCTCCAGATTTCACATTAAAAGAGAGGTTATTCAAGGCTACGTATCAAGTTGCTGTCAGAATTTGAAGTATAACTGGAAAATAATTAGCTCATGCAGTAAGTGCTAGTAGGCTAAAATTCAAACAAACACTGTTGCACTACTTACAGTTTCATAGGAATTGGGCCCACCACATTTTCCCCCACATTTATTTTAAAATGCACTTTTTTTTTTTTTTTTTTTTTTTGGCCAATAAATCTCATCATTTGCTCAAGAAGTAGCTGGTTCTGAATAAGAACACTGGAACGTAAGCATCTGAGTTTTGCAGAAGTGCCAACAAAACCTAAACCACCCCAGGACCTGCACAGGAACCTCCTTACATATTTGCATTTTTGGCAAAGGGAATAGTTATAAAAATCTTATCCTATGCACTTAAGCATAAGGTTCTTCTGAGCTAAAAATAAAATAATGATTTACAAATTTAGGACTGATACTCCCACTACTACCACTTGAAGTTAAGACTATCTCACATCATTGGTATTCTGGAGTCCTTTACATCACTGATTTAGAGAAATAAGTATTTTCCCACAAGTCACCTCACATAGGCTAACATGGACAGAGTGATTTACAGGAGCTAAGGATCTGGACTTCTTTGCTTATCATAATTGGCATCAAAAAAGTGTAAGTGAATTACTTTGTCTCTTTTTAAATGTGCACTGGAATGAGACCATGCATATTTGTGAAGAACAGATCTGACACTGTCAAAATCAAGGCCATGTAAATATATGCCTTTGTTAAAGAGTCAGTTCATACAAACAGTAATATGATGCATGCTGAACCACGGTCATCTCTAGATCACATTGACCTGGCTATTCTGAGCCATTCAGTAGGCAGAAAACAAAATAAACATATTTGCTGAACCACTACAGTGGAAAGTTCAGAACAGAAAGCAAAATACAGTATTGAACTATGAAAATGAAATACATATTTAGTAACATAGTGTTGATTATATCCACAAATTACAGAGGGTAGGACACTGATTATGTGACATGTTTCAATGCAGGTGGAAAGGGTCGAAAATGACCTAAGTAACATGGTGATCCACAGCTTTCAAATGTAAGTTTTAATTCTAATATTGGTATCTTACCTTAAATGAATCTGGAAACGCAATTTATTACATTGAAACAACCTTAACTATGACCAATAAACATCTGTGGAATCATTTGAGAGAGACATTAACAGAATCAGTAGCTATAAAGTATTAAAAAACAGTCTCTCGGTCTTAATTGGTTGTTACCAAGGGATTCATGCAGGGTTGGATGAGAGTTTATACAACTAGGTCAAATTAAAGCAATTGTATCATTTCCTTCAAAAATAGTTTCCAAGATGATATTAATTCAAGAGTTTTTTTTCTTTAGCATGGCTTGCATACCTCAGTTTTGTATGTGTGGGACAGACTTTACATAAAGTACTGAAACTTTCCAGTAAGAGTGGTTCAGTGTGTTTGGTCCATGGAGAAATGTTGCTATCAATTGCTACATCATATTTGTATAGGTATATATAACATGCATGTGTAGTTGTTGCATACTCCATTTTCCCAAACAAGTAGTGAAAACATGTTCCATTTTCAGAAAGTCAAACACACATAATATCCTTATCACAAAAGCAATGCTTTTAAAACAAGAAATTAAAGCAACTGAAAGTAACAGAAAGTACTCACTTTACTTTTCTTCTCTGTTTTTTAG
Seq C2 exon
CTGAAAATGCAGCTGGAGGTGGTGGAGGTGGAGAGGATGGAAAATCCAAAACATGTATAGTTTTGTAATTCTTTGTCTCAAAGACACTGTTTCTGCTACAGAAAAGACATCTAGAAAGAACTTCAAGGAGCCCAGTGGATTTCTGCTTCGCATAGAATAGTCTAGATCAATCTCTTAACAATCCTCTTAAACACTTGCCATTTGTTGGAATTAATTTTTACTGGAATAAAAGAAAGAGTTATAATTAATAACTGAAAAATCAAAAGACAGAAGAAAAAATGGTGCAAAATACATAAATGTGCACTCTAAAACTTTTTCATGTCACTCAATTTATATACAGTATTTTTATTAAAATAAGTAACTTCTGCATACTGTCCAGAAAAAAATATAAATAATTTTGATAGATCTTATGTAACATTACTGAATGAAATCTATCATGTACAATTCAATCAAAAAAAAAAAAAATCTGTTTTAATAACTTGTATATTTAGATTTTTATATTATGTGTATTTCCTTAATCTGGAATTCTGTCCTTTTCCATCATACTTCATACTAAATACAGTTTTGGGGCAAACATTTCCTTCACTTTAGGAGAGCTAAAGACAGTTCCCTGTCTTGTATCTATAAAAAGCAGGTCCATGATGCACAGACTTTTTTTCAAAACTACCATGGGTAAATCTGCAAATTACAGTCATCACTTGGAGAAGCCACTCCTTTGCCCATCATGTCTCTGCCCACAGTTCTCAAATTGAGTACTTTTTATTTTAAAAATCTAAAAAGATACACGACAAACACTATGTATCTATGTACCTACATCTACAGCAGGTTCCACATTCAAATGCATTTAAAACGTTTAGGTACTCCCAATGCACCTTCTATAAAATGCAGTAAAATGAACAGAATTTTCTAGTATCTGAAAACCAATGAATGGCACAAATTTAGTCTGGGGAGGCAGAGAATAGCACAAGTAGAACACATCAAAATTCACATTTCCACAACCAAGACAGACTGCACACAATTTAGCCCTTTGTAAACAACAGTCTCCCTACAAAAACCATTGGCTGTTAAAGTGTGACAGAGTTCGCACCATTCCTTCTATTCAGGTCCCATGAAGCCACCTCCTACTGCAGATGAAGGAAGGAAAATAGCTACTATATCACACATGTATCTGAACATTCAGTGGAACCAATTCCAAACCTAAGAGAATCTGGAGGTCAGAGATGACTCCTGTAACAAACAGGTTTTACAAGGACACCCAATCCTAACACTTTTCTCCCCACTTTAAACAAAGCAGAATCATACACTTTCAATTTTTTCTCTGAAAAGCCCTCAGAATTAACAGAAGGGAGGACCGAAAATTTTGTCATATTATATACCTTCCTAAGAATGCTGTAAAATAGATACTGTGTACAGCTATCATTCAAAATTAAAAGGAATCCACAGTTTCCCACTTATTACATCCTTATTTACAAATGGGCCAAGTATTTTATGCAAACTTGGTTATGACATAAAACTGGATATCGTGTATTATTTTCTGTATTAAATATAGATACAAAAGAAAGCTATTCCAAAGTTGTTTAATCATGTAACTTTATTCATACTGTATTAAATGATGTATTTAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006626:ENSGALT00000010702:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.346 A=NA C2=0.591
Domain overlap (PFAM):
C1:
PF0023314=PDEase_I=PD(7.6=36.5),PF141951=DUF4316=PU(87.5=80.8)
A:
NA
C2:
PF141951=DUF4316=PD(10.4=21.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]