GgaINT0054587 @ galGal3
Intron Retention
Gene
ENSGALG00000009920 | COCH_CHICK
Description
NA
Coordinates
chr5:36604355-36609638:+
Coord C1 exon
chr5:36604355-36604399
Coord A exon
chr5:36604400-36609481
Coord C2 exon
chr5:36609482-36609638
Length
5082 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GAGTTTTTCTTTTTCTTTAGCTT
3' ss Score
7.97
Exon sequences
Seq C1 exon
GCGTCTTTCTGCTCTGCGGCTCCGCGCGTGGGAGCGACAGCTCAG
Seq A exon
GTGAGTGTGCGGTCCTCTGTCCCGCACGGCGGCAGGACGCGGCTGCGGGGGCGGCTGCGAGAGCCGGTGTGTCCTTTGGGGTATGAGAGGCGCGGAGGCCGGGGGGGGTGTGAATGCGGAGGGGCACGGGGGGTGTCTGGAAGCGTTTCTGCGCTTGTCCCTCCTGGTCTGAGTGTTGACAGGCAGCGGTAACAAACGTGTCTGCCCGGGGGAGTGCCGAGTGAGTGTGGGTGTGCGTGTGCCGCGGGGTGCCCGAGCACCGACAGCGCGAGGATCCCCAGCGCATTTCTGCCTGTGAGATCGATACGACTTTTGTGCGCCCGCACCGCCGTCACTGAGACCTGGAAAGCAAAGAGCGAACTGAATGCACCTAGCGGTGCGGGAGCTGCTACGTGACTGCATCCCCGCCTCTGGACAACGGGTGCCCGAAACCTGTCAAAGCGAGGGAGCCGTGAGCCGCAGGAAACGCCGCAAGAAGTGTCCTAGGGGCGCGAGCCGCGTGGTCGGCCCTTCTAGCGCAGCCCGTCGCCGAGCGAGGGCGGGCAGGAGCCCCGGCAGCGCGCCCGCCCGGTCATCGCCCTGCCCGCGGCCGGTGAGTGACCCGCGGCCTCCGGGCCGTCGCTCGGGACCCTTTAGCGGGAAGCGGTTATTATCGAGATAACAGCCGTACGTCACAGGACTGCTGTGACTGAACAATAAAACAACAAAACAGCACCGGAAAACCTTCAGCAAGCAACCCCGGTTCCTTTTCTTGTTTTACAGGTGCATCACAGGTGAAATGTCAACGGGAAACAAATGGAAAGTTTTTTGTAATGCTTTCTCCCAAGGCTGGAGAAGAAACCTCTAATTAGAAGGTATCTGGGACCAACCGAAGTAATGTTAAGGGGACGCTGGCAAATGTTACTGAGCTTGAAGCATGCATAAGCTTTTACGGGAAAAAACAGATTACAATTCTGACATTCAAAGTAATGCAAGAACACGGAGCTTCCTTGAATAACTACCTTACTTAGGCTCGTAGCTACTCAGGGAGATCTTTTTTCATAGTCCCCTTTTAATAAATACACACCAATACAGCCAAGTACGACAACTGTCATACAGGAGATAGCTGCAGGGGTGGGTGCACACTGACATACGGTAATCAGTGAACTCAATTTGGACAGAAAAGTGCACACCTCAGACTGAAATAAGTAATACAGCCCTGATGCTTTTTAAAATTTCATTGCTCTTCATATCAAGATATACACTGATCTCTGTAATGTTCAGTACATAATGTATGAACGCGCTTTCCAAAATGTAAGCAGGTGTATTTCTACCAACATGGTTTTCTTCTGCTACGGACAAGGCTGGTAGGAATATTCATTGCCTGACGTATAAATCCAGGTTTGTCTGAAGCCTCAAGACAAAAAAAATGAAACAAACAAACCTCCAAACCTTCCTGTTCTGAAGAGAAATTAAGCACTGTATAAAACATACTGGGGAAAAAAAGCCCCTATTTTATGGCCTATAAAGCTATCTGGGTCTTAGCAGTCCCTGACACTTAGAATTACCTACACAGGTCCTTTTTTCTTCTCTTGCAAGAAGTCTAATTTTCCAAAACAATACATGGAAATGTCAAGGTTAGAGCTCAAATCTGAGCATTGATTTCACTTTTCTAGAGTCCGTGTGGCTCCTGCCAAAAACGAAGTGAGGGCTTCTTGTAGGTGGGCATAAGACACTGCTATTGAGAGCAAATCAGATTATGTGGGATGAGGCAACAAAAACATCAAACTGATGGAAAGATTGAAAGCGTGGTTACCAGACATGTGTCAGCACAGAAGTCAGCCTTCGCTTTTTTTTTCTTTTTTTTTAGGTCTACAATGAAGGAAGACATTCATCCCTGCCTTTAAAAATGGCTTGAAACAGGAAGAAATGCAGCTTTTGTTGGGTTTTGTGTGTGTGTGTACAGATTTCCCAGAGTACCCTCATGTAGTGTGTTTTCATAAGGCTTAAAGAGTGTGTCTTGACAGAGTGGGATTATGGTCGTTTTTTACAGACTAATGTGTTATTTTTGCATGTACAGAGGTCTCTGCTTTCCATCAAAGTCCAGAGTGGGTACAGGTCTAGGACTGAGTCCTTTCTTGTTAACTGCAAGCTTATCCCTCCTCTTTCTCAAAAACGCATGGATTTAGATCTGGAGGATTTAGATCTTAAGGATTCATGAAATTGATTAGAGTATTGGGTCACATAAGTATCCAGAGAAACATCTCAAGCACTGCTGCTCTTTCATTCTTAAATCACAGGGATTATAACACTTGGGTTTCATCTCAGTTACTGGTTTTGCAAAGATGAATTACCTTGGATATGCTAACAAAAATAACTACTTCCTTAAATTTGAGTAGCAATGCCTCACAAAACTTGGCAAGAATGATTACTGTGTAAGCTGGTAGAGAACTATTCTGTATGATCCAGTATTCAAGTATGATTAACCCATTTTAAGTTCATATTGGACTGCTTGTGATTTTACAGGATTCATTAAATAACAGGGAGGAACATAATCACTGCAAAGCTGGTACCATTAATTTTAACTTTGGTACCCAGTACTTACTATCTTGATAGTGTTCTTGATAGTGTTCCTGACATTGCTAATGTGAGTTCCAAAATTATAGCTCAGGAAGCCGTATCTACACAGCAAAACAAAATAAACTGCTTTTTAATTAACAGCGTAAGTACCCAAAGTCAAAGTGTGTGATACAAGACTTTCTTTGCTGATCCAACTGAGCTATGAGCTGTTAAAGGTCCTAGCTGCAGTATGTCAGCTGTTCATACAGCAGCAACTTGGTGTATTCCCTCTGGAGTGCCTCTTTCAAGGTACAGATGAGGATCTTTAGACAACCAGTACATAGAAAATGTATTGGGTTGCAGTGTATGACTGTGTTTTCGTGGCTAGAAAAACACAGTCAGATTTCTCCATGATCACCACCATCTTCACTGCTATCAAAAAGGTAAAATGTTAGTTTGACACGACTGTATTTAGTGAGTGTCTGCTAGTGAGAGACACACAGATCTCCAAGCAATAAGGCATGTATTAATTAGACATATCCAACTGTATTCATTTGTGCAGCCTGCCAAGGAACTCAGTCGGGGTAAGTACATTAGAAGTGGCAGGTATTATAAACTTCCTGTGGTGTTCAGCACTTTTGGAGGCTGGAAAAATGTTCCAGGGTACACAGCACAAGTTGTACTGCAAGACCAGATTACCTTTAGTGCCCATCGCAGTGATTCCTCTAAGGGTATCCAGCTTTCTGGCTGCTGTTGGATGGCCTCGCTAGTTGTCACTTGATGGATATTATTTTATTATGAAATTATCAGGGGACTCGAATGCAAGACTGTGTAAGTCTTAAAATATATATATTTATTTATTTTTAGAGAACTTGTTAATAAGACTAAAGCACTTTAGTGGTTCTTATTAAGTAGAAGGCTTCTATTATTCTAAAAGGAGGAAATGAAAAGCCATTTCCTGCTTTTTTTTTTTTTCCCCCTTCACCTGGACTATATAGACATATTCAGCACATTTAAGTAACATCTTAGTGCTGACAAATAGCTGCTAAGGTTTTTTAGGAAGATGTGATTAGATAGCTTATTGTAATTTACATGTAGTATTAATGAGGAGTAGGTATACTTAAGCAAAACTACACGTGTGTTCTGTAAACACATTTGTTAAATTCATGCAGCAGGAGTGAACAGACACGCTTCACTGTGCACTTCCAGCTGTAGATGTTCTGACTGTCAGCTTTAAAGTCAGTGAGATTAGCAGGAGGCACCACGGCAGCGTGATCTTTTCCATCTGCTGATTAGGAGCAGCATATGCTCCAAAAGCACTCTTTCAAATAACAGTAGCTTATTTTGGGGTCAGTAAACACTTTGGGTTAAGAATAGAAAGGGTGGGCAGGGAAGCAGGCATGGGGTGGAACACTAATCCATGAAACACACTTTCATGGTGCGCACACCTAATCGATAGCTAGGCTCTGTCAGCTCTAGATATCAGAAAAAGGCTACAGAAGAGGTTCATATCCAGTCATGAGTTAAACTTATGACGATGAATTGATGTTTATCTAAGCTAAAACGCTAATTTGCTATGCTACCAGACTGCACCATTTAGCAGTAAGGTGGTAGTTAAGCATATGAGATAGTGACCTCTAAGTTTTCAAAAGAAAAAGCTTCAATCCGACAGGCAAAAGTTAACACTGGTGTGCACCTGTCTGCATGTGTAGGTGCACGAACACGTAAGTACAATAAAAGCCAAAGGATAATAATTTGGGGAGTAACTTTCAAGATAAAAAGGCAAAATTCTTATGTGAAAAATTTATGTGCTGAAAATGAATAAATAACGTTAGTCTCACTGGCTGAATCTTAGAATTATCTGCACACCTGTGATGATTTAATATTATTGCAGTGAGCCAATATGAATGTCTGAGATGCAGCTAGTCTTGCTGGAACAGAAAGATTGGTACTCCCTTTTTGTTTTTACACTGGCTTCAGCAGGATCTATTGCAGAAGCTCAGGGAGATGCTGCTGTCAACCTGTTCCTTGAATGACACTGGGCAGAGCTTCCCAGGCAGTCTGCAGGTTGCCCATAGCTGAAGAGCACCGTGAGGATGTCTGTGTCCTTTGGTTCCTGTCCTGGAGACAGGTTCCTGTCCTGCCACTCCCTCCTGTGCCCACCAGCCCTCTAGGTTTTTTCCCTGGCCTTTATGTCTGCGGTAAACTTGCTTGTGTTGTGAACTGCTGCTGCTGTTTTCCTCTGTAATATTTCCCGGATGTTATTTTAATGTTTAGTGTTTCCTCTTTTTTTTTTTTTTTAAGGCTTTTCTGTACTTTTCTGCCTCTTCTTTTCCATAAATTAAGAACTGCGTTATAGTTGTTATAGCTGCACGCTTCTAAGTGCCAAAGAGACCTTTACAGACACACTGAAGCACAGGATGAGAGGCTGTACCTAATTTCAAATTCAAACAGTGCTTCATATTTGGCAACAGAGAGGCTTTCTTAAGAACAATAACAGCAAAAAATAAGATTTTCAGGTCACGAGTTTTTCTTTTTCTTTAG
Seq C2 exon
CTTCCAATGCTATCACATGCTTTACAAGAGGACTTGACCTTAGAAAGGAGACAGAAGATGTCCTTTGCCCAGCAAACTGTCCTCTATGGCAATTCTATGTCTTTGGGGATGGAATTTATGCCTCTCTTTCCAGTGTCTGTGGAGCTGCCATACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009920:ENSGALT00000037860:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0381514=LCCL=PU(53.3=90.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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]