GgaINT0039207 @ galGal3
Intron Retention
Gene
ENSGALG00000005069 | PGH2_CHICK
Description
NA
Coordinates
chr8:10064544-10067539:+
Coord C1 exon
chr8:10064544-10064691
Coord A exon
chr8:10064692-10064846
Coord C2 exon
chr8:10064847-10067539
Length
155 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
TTATTCATTAATAATTACAGGAG
3' ss Score
4.62
Exon sequences
Seq C1 exon
GTTGCTGGTGGGAAAAATGTTCCAGCTGCAGTACAGAAAGTAGCAAAGGCTTCAATTGACCAAAGCAGACAAATGAGATACCAGTCTTTGAATGAGTACAGGAAACGCTTCATGTTGAAACCATTCAAATCATTTGAAGAACTTACAG
Seq A exon
GTAACTTTTTTTTTAATCTTTCTTTATAAACAAGTTCCATTTTGCCTTTAAGTGGGTAATAGAAGCTTGCAATGCGATTTCTGAACTTCAGCAGGATATTGTTGCTGTTAAAACAGGACTTTTCACTTACTGTTCTTATTCATTAATAATTACAG
Seq C2 exon
GAGAAAAAGAAATGGCTGCTGAACTAGAAGAGCTTTATGGAGACATAGATGCTATGGAACTGTATCCAGGCCTTCTTGTAGAAAAGCCAAGACCAGGTGCCATCTTTGGTGAAACAATGGTAGAAATTGGCGCACCGTTCTCCCTGAAAGGACTGATGGGAAATACAATATGCTCCCCTGAGTACTGGAAGCCAAGCACTTTTGGTGGAAAAGTGGGGTTTGAAATAATCAATACTGCCTCCTTACAGAAGCTCATCTGCAACAATGTGAAAGGCTGTCCTTTCACTGCTTTCCATGTCTTAAATCCTGAACCCACAGAGGCAACTATTAATGTTAGTACCTCAAACACAGCAATGGAAGATATCAACCCCACACTACTACTGAAAGAGCAATCTGCTGAGTTGTAAATTAGCCACCTAATTTATTTATTTAAGTTATTCTATTTATAGCTCTAGTATTTAGAAAACAAAAAGCAACCTTTTACATCTTCACTTTGAGGGTTGCCCTAGATTCCTTACTCAGGTAAGGCTTCATTTTAGAAAAAGGGATTTTCTGTGTTTTAGCTCTGCAATAGTGAATCCCTTGTTTAAAGCCTTCTGTAACAGAACTACGTATTCCAAAATGGATTAAGTTCCAGTTTTTTACTTGTTTGTAACTTGACAAAGGGTGTTAGGGTTTTTTGTCTTCTTGCTTTGATAGGTCACATAACACTACAAAAAGCAAGTTATTGCCTCAGCAATTTTTTAATTTGAAGGTCTGTTCTCAAGTTTAAAAATGAGAACTTGATTTAATGAAAACTGCCAGAAAAGATTCTGAATTGTGTGAGCACTCCAAGATTAACAAATACATGTTTGAGACTTGCTTGTTTAAAGTCAGAAAATGCATTGCATTTATCAATGATACTACCTCTCCCTCATGCAAATAAGGCACTTTGTACAGTAATTTACGTGATTTTTTTTGTATGTTTGTCCTTTTGTGTGGCATTATATTTTTTCATCATTTTTAATTTAATTATTAATTTAATTATTTAAGGATAATAGAACTTGTCTGAGATGCTACCTGTTTTTGAAGCATGTGTCACAGAAGTATTATTTAAGTGAGATGATGTTAACAGTGGTACTGAGCTTAGACATGACTGTCAGGCAGGAAAACAAGGCTGCTTGTATATCAGTAGACATTTTATTTTGTGACTCTGGGAAGATCTTAAACTTAATCCAAAGTAATAGTGTGGGTTTTTTTCTTGTTTTATTTTTGTAGCTGTAATTCTCTGGTTAGTATAAATTCTCTGGACAATATAAATCTGTCACTCTAAATAAAACTATACATTCTTTTTGTCCTTAAGGGCATGACTGTAATATAGGTTTATGTAGCCAAACTGAAATTATTGGGGAATAATTTAGGAAATTAAAAAAATAAATAAAAAATTGGGATGCTGTACAAACATAACCAGCACTGACTGAGCTAAACTTCAAGGCACCAAGGCTTTGTTAGTGTAGGTCTATATAAATAGAGCTCTAACTCATGACTATGAATTGTTTATTTGGTTGGAGGGGGGATGTTAATGTTTTATTTATTAAAGTATAAACAGAGGCATTTTAAAGGAGTGGCTTAAGCTCTAAGGAGAAAAAAATAATAGCTAGCAAAGCACAAAATATCCCAACACATTTGTCCTGGTCCAGCGCTAAAGTATCTAGTATCATTGGGGCACATAAGAACTTAAGTGGGATCTTGTACCAGCATTTCAACCTTTGCATATAAGGGTATCTTTTTTTAATTTCTAGAGAGGAAATGTAGAAGATGATCTTCCCATAAACTCAGCTGGGGAACTGTAGATAAAAAGAATATTACTTCAGACTGGAGTAGAGCAGCAACCTGGTATTCTGTGCCCCCCAGCCAAAATTCCTTGGCTACTTGTGGAAAAGGACTTGTTTTATATTTCCATTTGAATCTCTTGAATGCTTGTAGAGGCTTGTGCTGTAATGGCTGTGGTACTAGAATACTTTGACTTCTGTATTTCTATTGATTTGTTTAAAGATGCTGATTATCTTCTACAGTGCAAACTTGTAACTGGTAGCATGAATAGCTGACTCCAGATCTCCTACAGCAATTGATACCAGTGACTGATTTGAGGTGGTCCTTAGTATAAATGCTTTGGGAGATGGAAGGGTGTTTGTTTGTTTTTTATTTGAGGCACAAAGAAGGAAGAAAATTCAGTAACTTTGTACAAAAAAGGGGCCAGTACTGTGTTCAATTAATGAAAACTGCTTAATTATTGGTTAAGCATGTAACTGTCATTCAGACCACCTTTGGAACACGCTTTAGTGCACCTACCTACCATTTGCAAGGAAAACTGTATGACTTAAAATCAAAGGAAGACAAGTCTGGGCAGATCTAGTTATTTTGAGGTAGGTAAGAAAGAATTCATGAAAATAAGTTCATTTCAGCCAAGTTCTTACAAGCTGCTTTGGACAGGAATCCAGTTCACTCTACACTTTGTACTCTGAAGCCATGTTTTAACACTTATCTGTGACCCAACCTGCTGGGTTTGGCTGGGTTCAAGTTGCTAGTGATAAATGTGTATGTTTGAGATTATTTATTTAAAATTCTGTGAATTGTTTTTCACTCTATTTTTATAGGACAAGAATGTTTTTTTTTAAATGTGATTGTTTATATAAATAAATTGAAAACACTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005069:ENSGALT00000008125:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.052
Domain overlap (PFAM):
C1:
PF0309810=An_peroxidase=FE(13.5=100)
A:
NA
C2:
PF0309810=An_peroxidase=PD(26.6=71.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCTTCAATTGACCAAAGCAGA
R:
AGTCCTTTCAGGGAGAACGGT
Band lengths:
256-411
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]