GgaINT0125789 @ galGal3
Intron Retention
Gene
ENSGALG00000000864 | Q5ZK75_CHICK
Description
NA
Coordinates
chr17:11104041-11107590:-
Coord C1 exon
chr17:11107421-11107590
Coord A exon
chr17:11105942-11107420
Coord C2 exon
chr17:11104041-11105941
Length
1479 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
AGTACTGTCTTATCTTCTAGGGT
3' ss Score
10.11
Exon sequences
Seq C1 exon
ATTTGGCCTATTGGAAGGGAAATAAACTGCAAGTGTTTAAAAACACTGTCTGTTTCTGAAGATCGCAGCATCTCTCTACAGCCCAGATTGCACTTTGATGGTAAATACATAGTGTGCAGTTCAGCACTAGGATTATACCAGTGGGATTTTGCCAGCTATGATATTGTCAG
Seq A exon
GTAAATCTTTCAGCTTAAGATGTGCAGAATTTATTCTCAAGGCGTACTTTTAAAAAAATAAGAAGTGTAGTATGTTAGTTTTAATGCTTTAGATGTCATTCAAAAGGATCTTGATGAAAAAATCTTTACACATCATTCTTCACAAATATTGCCAGGTTTCATTCTAATTTAGCTCTTATTATACCAGCCATTTCATTGCTGTTTTGATTTCTGGCCACAAGCCAGTCCTCTTTCATATTTTCAATACATGAACTTTAGAGTTTTTAAATAGACTTAAATCAGGCTGCGTTGCTGTAGTTTTGAACACAAAACTGCAGTGACAAGAAGCTAATGTTGCTATGGGAATTGCTCTGTAGTGAAGCAGAAGGCCTTTTCTGGGAATCATTCAGTGGGACAAGATATTAGAAAGACCTTTTCCTTACAGCACTACTGAACTGAGATCTGTCATTCTGAATAACGGGGTGGAATGTTAGTGAAATCTATGATTGCAAAAAAGGATAAAATATTCTGTTTTAGAAAAAAAGTGTGACATATCTATTGGAAATGGTGTAACAATCTTTGTGGTGACATCAAAGATTCTAACTTATTAAAGAAAAAAAAAGTATTCTAGAACTCTTAGCAGACACTTAATTGAAGTGGCTGGAATTTTTTGAAGAGTGCCTGCTACAGGAAGATCAACTCCAAAAGAAGTGCTCTTGCTAAGATGGAATTCTTCAGTTATTCTTACTATTAGCTTACCTTCCCGTGTTTCAAAAGAGAAAGGTAGTCACTCACTGCTAAAAACAGATTTTCATATTGATATGTTTTTGTGCCTCAGTTCTGTGCATTATGTAACTGTACAGTCAAATGCTCAGTCAGCTGTGGAAAACTTATTCTTTTCAATTTCTGTTCAAGTTTCATTTATGAAGCAAAAACTCCCAAATGTATAGTAGATTTAATATGCATGGTTTTTTCTCCCTGAGATGGATATGTTTAATTTACACTAAGGGTCAGTAAAGCAGCATTCTGTTAAGTACCAATCTTGAATGATTTATTATAGTGTCACAAGATGGCATTTTTACACTTTATTCCCCAGCTTTAAAAAAAGTGGTCCAGTAAGAGGCTACACCTTTTAAAGGCACTTAGACATTAAATCTGTGTGAAAATTTACAGTAAACATAAGTACATCTATTCTTTTGTGTATATCTGGGAGCAGACTTTTTTTTCTGTTGTGCTTTGCAGAATCCATTTCAAACTTTACCCTTTACTTACATTTAGAATGGTCTGTCGTGAATGCAGAAAGCCAGTACTGGAAGCACAGGCCTGATATAAAAGTTCAGTTGTTTAATATGAAAAATTTGCATATAGTTCTTCTTGAATAATTTAGAAATGATGAGTTTAGATGCTTATTCTCTATAGACACATAAGGGTTTGTTTTAGTAATGCAACTTCATGACTATGTAGCAATGGAGTTTCTAACAGTACTGTCTTATCTTCTAG
Seq C2 exon
GGTTATCAAGACTTCTGACTTCTCAAATGTGTCCTTGCTAGGCTTTGGAGAGATATTTGCTCTACTGTTTGATAATAGATACCTGTATATAATGGACGTGAGGACAGAAGAACTGATAAGCCGCTGGCCTCTACCAGAGTATAGAAAATCAAAGAGAGGGTCAAGTTTTTTGGCTGGTGAAATGTCTTGGTTAAATGGACTAAATGGTCAAAACGATACAGGCTTGGTTTTTGCCACCAGTATGCCAGACCACAGTATCCATTTGGTGTTATGGAAAGAACATGGCTGAAAAGATTACATATGCAGAATCTTCAGGATTATATGGACTATCAGCAATGTGTCCATCAAATGAAACTTTGCATGAACCAAAGTTGCACATCTAATGGTATCATCATGCAATGCACAATCACTTGATTTTATTTCGGCATTTGGGAACGGATTGGTTTTGACATAATACAACAGAGCATGCTAATAGTATTCACCATTAAATTTCTCTTTACTCATATTTAAGCGTACCTGTTTGGGCTCTGATGCATAGCTTGTGAAGTTAAAACTATTCAGATCCACCATTAAGTCTAAAATGAAATAGTGCTTGACCTCATTTCTGCCCTTTTTTTTTTTGTTGTTGTTGTTGCTGAAACAGAAGGTGGAGCTACTGTTTTAGAATAGGCTTTTGTGCTTTTGTGCGTGTAACACCAAGTACTGGTTACAGTGCATGGCTCCTTGTTCAACTTGAATGAGAACATAGTAGATCTTTTCTCTCCCCAGTAATGACTTTCTAAAAAGTTTTTTTCTTTATGAAAGCTTTAAATACTTAACCTTTGAAACTGAGTAATCAACAGAGTTATTTAAATAGAATCGGATGCTAACAATAATAATTTGTTTAAACTCAGGAATGTGCCAATATAGGCTCTCCTCAGTCAGAGTGAACCTACTTTTCATCTATCTGATAGAGCTTGCCAAAGCAATTAATCTTAGAGGTCCTCTGACAGTATTTTGTCATATTTGCTGATGGTTATCTCACTCAGAATGGTTTGATCAGTATTTTTATAGTCCACATTTCTGATTATGTGGGAATGCAAATTAGTTCTCAGGTAGATAGAAATGAAATGAATTGGGTGATGTTCAACCCCTACAGCAAGAATAATTACATTAAATGATGCCTACCAGCCATACACTTTTTCCAAAAAGTTAAAGTTATTTTAAGTGCATTATTATATTAATTGCTACGTCTACATTTGAAAAACAGGCAAATGTGAATGGCACATCATTAGAATAAAGAATAAAAAATAAAATCAAAAATTTGAAAAAAAGATGAGTAGGAAAACATCTTTTATTTTCATCAGCTGTATGAGACCTGAGGTATAGATGAATTAACTATTGAGTAGCAATACTCCACATACTTTTGTGGTGTTCAACATGTACTTAAAAGATGTATCTATGAAATCTCAACTCCTATACTTCAGAAATACTGAGGGATTTTGTTTTGCTTTTTCTTTACAATAAAATCTCCCCTTCGTCTCTGTTTTTACACAACTTGAAAATTAGATTTTTCAGAAAGATTGGCTCTGGTCCTTGAAAAGATAAAATTCCCTAGCATTAGCATTTATTTGTGGTTCTTGTTGTTGTTTTTGTGGCTCCCAGCACTTGTGGAAACTTAGTTTCTTATGTAGTAATGAACAGAGGCCATGTTTCCCAAAGGTAGTTAGTATGAATCACACCAGTGTAAGAAGTTTTGGTATGCAAGAATCGATACTGGAGTGGTGTGGTAGGAATTACATGAAGTCACAGTGGAGCAGTGTCTCTTGAAAACAAGGCCGAAGTCTTAAGTACCCAGTTTTCCACCTTTATTCACACCAGCCTACTTTGAAAATGTTTGTAGTAAAGGAATTTTATCAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000864:ENSGALT00000001266:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCCCAGATTGCACTTTGA
R:
ACTGTGGTCTGGCATACTGGT
Band lengths:
349-1828
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]