GgaINT0125445 @ galGal3
Intron Retention
Gene
ENSGALG00000003534 | F1NM06_CHICK
Description
NA
Coordinates
chr17:7240745-7246449:-
Coord C1 exon
chr17:7246368-7246449
Coord A exon
chr17:7240857-7246367
Coord C2 exon
chr17:7240745-7240856
Length
5511 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TCCTCTCTCCACCCTTGCAGAAA
3' ss Score
11.04
Exon sequences
Seq C1 exon
TGTCTCCGAGATAAAGATGGAGAAGGTACTATCCAGCCTGATGAAAGACGATCGCTTCAGGCTGCGCAGACCAGGAAGCAAG
Seq A exon
GTGAGTTATTCTGCTGATTTGGAATTGCTACCATTGTCATTTACCAGATAAACATCATAAATATTCCTCCCTTAGCTTCCATCTTTGCGGTGTGATGGTTGGTATGTCCATCACGTCGGGCAATGCAAGTAGTCATAGAATTGCCTTATGTCACAATTGTCCAGTCTTTAACCTGCTGTCCAAAAACCAGCTCTTTCTAACTCTTCAACAAATAGTTGTAGCAGACAGTAAAGCTTTCTGGCTGCAGAAGTGTTATTTCTTTTTTCCCACAGTGCTTCTCTTCTCGGCTTTTCTTCACTGAAACTGTTGGAGATTGCAAATAACATAAAATTACTCCAAAGAAATGAGTAAAATGTATTTGGTGATGTGCTGTGTAGGCTTTTTAATTATTACCTGTATTTACTTGGAGCCTGAAACAAAGCTTGCTGGGCTGACAGTCATCTTTTCATTGATTTCTGCAAACTTTGGGTCTGCCATCAGTTTGCTAATTCACAGCATTCAGTCATTTGCAGTTGATGGTGAGGTGTTTCTGCATTCTGTGGAATTAAATCCTTGAAGAACTTCCATTTTGAATGGAAGTCAAGAATGCTTCAAGCCTGATGCAGAATGCTTTTTTCTTTCCTCTTGTTGCAGTTTTGCCTGTTTGTTCTTTCTGCTTTAACGTATGTGAGCCTGCAGCCTGTCCAGTGCCTTCTCATTTCCTGCAGATGACTGTTAAGAACTGTGGTGGTTTTGGTAGACATGCTTTTGAAAGATGCTCTTTTTTCCTTCATGCCCTATATTTCACAGAAAGCTCCACCTGTGGGTACTGTGAGATACAGCTTTATTTCAAGCTCTTACCTTTTCACTGAAATCACCATATATCCTATCTTTTAAATGTTTGGAACATGCTAGTGATATGGTCTGTTAGCTGGTTCAACAAACACGCAGAAATGTAGATGTGCTTTGTTAATGCAGGAATTATTTAAAAGAGCTTTTTGTGTCCTTTTCTGGCTCGTAAGCCTGGTTGCCAGCGGGACTGATAGGATTGATATTTCTACCGTGCTTTCAAATTGCAATTGTAAAATACTCTGACTTAAATACTCATCTTTTTCCATTCTAACTGTTCTCAAAACAAAAACAAAAGAATGCACAAATAACAACAACAAAACGTATTTGGAAAACAGTTGTTGCTCTCGTTTGATTTTTGCTGGGTGCTGCTGCCTAGGCGTGCCCTGTCATGCCAGCTGCTGCACGTAAACAGAGGGAGCTGGTTCCTTTCACTTGCCATCAAAAGTAGGATTGAACTTCTCTCTTCCCTCTTCCTTCAAAGTGAATGGTATTTTGCTGTTGACTGCACTGGAGCTGTGATAGATTCACTCTGGCTGTAGGATGGACTGAGCCTGCTGTGGGAACTTAAAAATACAGAATTACCAATTTTAATATGACTCAGAATCTTACAGAATTGGGAGTGAGAAGTACTTGATGGAAAAGAAATCTCTGTAGTTTAATGGGGATGAGGTTGCAGTAGGCCTATCAAAATCACATAGGCTTCTTGAGGAATTACTTGAAAAATATACTAAATGCAATCAAGGATGTTTGAGTTTTATTTTATTAACGATCAGAGGCTCTGTAAGAGGTCTAATGCTTTCTCAGCTGTTGCAGGGATATGTTACCAAGTTTTAAGGAAGGTTAATCTCTACTAAATTCCCTAAGTTTGCTGTAAGTCAGCAGAGTAAGCTGGGGATGCAATGGACACTGCATAGGACAGAGAGAAATGGAGGACCTGTTACAAGGAGCTGAACCTGATCTATTTGTGATGTTGCCATTCGAGAGAGAGTTAGCTTTGCTTATCAGCCCTCCATGCATTGAGTCATGTATATATTATAGTTGTGCACACAGGAATCTCATTATGATGCTCTTCGGTTCTCATTGCCTCAACTGAAGTCCATTACAAGAACCCCGTTGGAACATGCATTTTTTGGGCTTCTGTGTGCAGCCAGGGAGCAAGCTGAAGTGCCTGTAAAATGTATATTTTATATTTAGGTGTATAAAATATATATGTGGCTATGTCTGGGTGTGTGAATGTTCACCTGCCTACAAAGAGAATAAATTTGATCTTTCAACTTTTATCGAGGGGGGCAGGGGGACTCGGTGAGTTCTGGAGGAGGTGTGTGGAGGTTAGTAAAAAGTTGTTATTAAAACAAAATCCTTCATTTTGTTTTGAAGTATAATGGAAGCAGGAGATGTTATAGCCAGGGTTTTGGGCTGTTTTTTTTTTTCTCTTCCTGCTTTAAGAAAGAATTTCTCCACCTCAGTCTGGTTTTACTGAGTTTCTGTCCTTTCTGCCATTAACAAACCCTCCTAATGAAGTAAGAGACTTTCAGTTCTTACCCTCACCTCTCAAACCTGAAAGCTGCAATCTTTATAATCACAAATTTCTTCTGAAAGAGGTAAGCATGCCTTTTTCAAGCGTAGCTGTGGGGAGGTCCCCCAGTGTCCTGAGCTGCTTAAGTCCCGTTATGGCCAGGCCTTTTTTCTTCTTAGAGATGAATAGATGCTGTTATTGATCTCAGGTTATGCTAGTGGTTAGGGATCTGTCAGAATAGGTTCATTCCAAGCAAGTACAAGCTAGAAAAAGCTCTTCTGTCCCCCTAGTTCTCCACAATGACGATAATGCTTATTACTTAATGGATGTAACGAATTCATCTATGTGGAGAGTAGATCAAGCAAAACTCTGGGGTAGGCTTTTATCTTTTGGGCCTTGGAAAAGGTGCAAGGGTCTCAAATTAATTGTCCTGCTCACCTGAACCAGGACACGAGCAGGATTAAAGCTTGTAAAGCATAGGGGATGGCTTTCAGTGCACTTCCAGTAGCACTGCTCTGTTTGATCTGCCCAGACACTCGCATGGTGTGCTGGTTTTATTTTCAATTCGGCTCTGAGACAGTTTTAAATTTAGATTTTTTTTTTTGTTATTTTTTTATTATTATTATTTTTTAAGATGAACCTCCCTGGAAGGCAGGAATCAAACACAGGGTTTTTTTTTTTTCATTCCCATTAGGGGGCAATTTTAAAATGAGATCTGTCTCGAGGGGCTGAAGGGGATAAAAGACAAGGTAGAGACGGGAGGAGGGGAGAAGCTGTTTTCTGAGTGCATTATGTTTCCTGCCATTTGCTTTTTTCATTTATTTCTCTTGGACTGACCTCACACTTTGGAAATTATGCACCTAGTTCTTTATCCCTCATTTTTGTCTTACTTTTTTTTTCCCCCAGCACCAGGAAGAAGAGATGCCTCATTTTGAAACCTAAAGGGGGGAATAAGAAAAGTCCTTTGTAATATATTGCCATATTATCACTAAATCCCCTGACAGTTGTGACACAGAAGCAAGTCACCTGTCACTTAAGCTTGAGGTCTCTTTAATTTTCTCCTGGAATTCGCACCAGGCTGTCTTTAATTTGAGGCCTTTATTGGAATTCTGAAACCTTTCTGCCTCCCCGGTGCTCAGATCTATTCTGAGTGCTGTTACAGAATGTATACAATAACCAACAGAGGGATTCAGAAGGGGCTGAAGCACTGTTTATTTAACACTCTGGAGGGATTTTCGTGCTTATTCGGTCCAGGCTACCCGGCTTTCAATATCGCTTTGACAACCGTTATGCCCTTCTCATTAATTTTAAACAGTTAAAACACAGGAAAAAGAGAAAAAGTTTTCATTATTAAAGTGCTTTACTTTTTAATAACAGAGGATTCTGTCCGCCAGGGGAAAGGGCAAACCTCACTAATTTCACATTCATATTAAAAAACGCTGGGAAGGTGACACTTTGTGCTGCCAGGAGGCTTAACAAAAGAAAAGTGATGGGGGCTAGGAGGAGCGGGCGGGTGGGAGAAAGTTTTATGTTTCACGTCAATGGAAACTTGTTAGTCACAATGACGAGTGTCCACTTGGAGAAGGCAGCACCACTTGTAGTTTATTAAACCCTTACAGAGGCCCCTCGACTGGAGACTGCCTCAGCTGATTAATAGGAGTGCGTTAAGTCAAACCAAAAGATGACGGTGAAGCAGTCTGTATTGGCCATCTCTGCAGTGCACTGGGAGATGGAGAGCAGAGACTGGCAATCTGGGAGGCTCTTACAAGGCCTTAAAACACCGCTGTTGACTTTGCTGGAAGTGCATGTAGTTCAGGCAGTGGGAGAGCAGGAATTCTGTTCCCCATGTGTGTTTGTTTCACTGGAGGATGATGCAGTGGCTGGGACCTGTGGGATCTCAAGTTCCAAGGAAGGCAGTGTGCAGGGACTGTGAACTGCACTTGGGGTCTTTCTGTGGGTGGATTTTCTATTAGGATACAGCAGCGGATCTGGGTCAACAGAGCTTTTTGCATAGGGTGTCAGCAGCATTGCCTGGCTTCCACAGTCCCCAGGGTTCCCAGTCAGCGTGATGTGGGTCCCCTGGACTGGCAGCAGGGCAGAGGGGAGTGGGGGGGGGGGGTTAAGCAGCATTAGATATGCTGGGGAGGAAGATGAGGAGTTGACCAGCATCAAATTACTGCCTTGGGTCAAGTGCTCTAGCTTGGATGCTGGTTCCTATCTGAGTAGCTTTTGAGAGTTGTGGTCCTTTCTTGAGGGAGATTCGTACCCATGGATGCTTGGCTTTACACTTTGCTGTCAACTTGCCATCAAAAATGTTTTCTCCTTGTCCACATTTCCTCTATCTGCCTTGGTAGTTCAGAAATAGAGCCAACCTCTTTCCTCCTCCCAGTAATGGCTTGCTCCCTGCATTGTTTGCTCTCCATTTTCCGAACCAAATTCTGCAGTCCAATTATGGGAAAGCTTGAGCACATTCAAAATTGCCTTTTTGGTTTAAGGAGGTTTCTTCTGTCATGCATTTGGTGCAAGGGGCTTATCTTACCCCAGAGGAACCGTGTGATAATGATTAGTTACATATGGCTTGTTGACAGTGAGGAAACTTCATGTAGACATCAATAATGAGAAGTTCATTTTAGTTGGCTTTGTTCTCAGGTGCTGAATTCGGTCCATTCTCTCAAGCATGGACATGAATGTAGATCTCCTGCCCTATGCATGCTAAGAAAGGGCCATGTGCTGTGGGGACCTGCTCAGGGGAGCTTGAAACATCGATCTGAAAGTCCTAAGAAAAAAAAAACTCAAGGCTGGCATGGAGCCTGTGGGGAGTTACTCCAAATAACTGCAGGGGAAATGAGCAGTGGTATCTGGCCTGTTGAATCAGAGGAGGAAAAAAAAAAAAAAAAAGGAGGGGAAAAAGACACGTGAAAGATGTTAGAAAACACAAAATTAAAACTGATTTGCTCTCCTCACCACGGAGTGCTTACTGGCTGCTTTGACTTTAACGTCTTTATCTATAATTTTTTTTTCCTCTAGTAATATTGAGAGGATTACCTTTGTTGGCCCCTGGGTGGTTACTGTGTGATTTTACTGTTATTAAATCTATTGTAAACTGCTTCATTATTCCTGACTCAAATTCTCTCTTTCCTCTAATCCTCTCTCCACCCTTGCAG
Seq C2 exon
AAATCCTATGGCGTGGACCCTCAGGAAGTCCGGGAGCGGGCCACAGTCCTGCAGACACAATTTGAGAATTATGTTCACTCCAGTGAGGGGACCATCCGGTGGGCAAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003534:ENSGALT00000005588:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.105
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF139591=DUF4217=PU(33.8=57.9)
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:
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]