GgaINT0061039 @ galGal3
Intron Retention
Gene
ENSGALG00000015384 | F1NA49_CHICK
Description
NA
Coordinates
chrZ:52503824-52507351:-
Coord C1 exon
chrZ:52507307-52507351
Coord A exon
chrZ:52503934-52507306
Coord C2 exon
chrZ:52503824-52503933
Length
3373 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
ACTCCATTGACTCATTGCAGGAA
3' ss Score
8.04
Exon sequences
Seq C1 exon
GATGAGAAGAACCAGCTGATGACGACCAACGTGTGGCTGAAGCAG
Seq A exon
GTAAATCAGATGGCCTCAGACCTTCCCATCCACTGTGATGCTGATGAGTGCAGCAAGGATGAGGGCTGCTGCAGCCTGCCACTCTGTCCATCACCATCCATGACAAACTCAGTGCCACATAACCCTGCCTGAAGTTCTTCTCTCCCTTCAGCCAGTGCCTGAAGGGGAGTAGGGGCAGACAGTGAGCTTTCAGGATGCAGGGTACCCTCTTTCTGGAATGCATCCCAGCTATGAGCCCAAGCCAGCTGTATTCTGGCGAACCAACATCTCCTGGAGCTGTGACAGTTGTTCTGGGATGCTGCCTGTGCGCCGAGGGACTATCTTGTCTCAGACTTAGAGGTCATCCAAGCACTGTGTCCCTTGCGCAAGCTAAGATAGGTTTCTTCTTCAGCACAAGTAAAGAGAAAAAAAGGGTCAGCATGTTAAACCCCCCAAATTAAAATCTGTGCTATTTCTGCCAACTAGTCATAACTCTCTATGTTTCTTCTGGAAGTAATTTACACAAGAGAAGGAAAAGTGCAAGCTGAACTGTTAGGTCTCCTTCACTCCTGAGGAACACTGTATTTGGTTTAGATTACACTGCACTGGTTTATTGACCTTGTGACAATTATTTTAAGTCTCTTAGCCATGTGAGCATCTATAGCTGTGTCAGATGATCTAATGAAGAGGACACAAAACCCTAGGCTTGAACAGAATGATGCTGTAAGAAGTAGTTCCCAGATTGCTGGGCTAGTGGAGGAGAAGTGCACCTCAGTTTGTGTCCTCAGTTTGATGTCTGCAGCCCTGCAGTGATTGAGCTCTGGGATGGTGCAGGATCCTGGATGCTGTATGGGTACTATGCAAAAGGATGGCCTTTCCCTTGGCCGGTTCCTCTATCCAGGACAAAAAGACTCCAATGCCCTGAGACAGCCTTCATCCCTCTGGCTGCATGACATTGCCATAGATGTATTAATGCATTTGAGGCAGTTTTGGTCAGACCTGATTTGGAGCCTCTGTCACCACTCACACCATAAGAAATCAGGTTCTGCTGCAGGTTCCTCTGAGCATGGTGTAGGGCTAGAGCAATGCCACCATCTTTTCCTCGCCTCTCTTTTCTGATTCCTTTGCCAAAAAGCATGGATAAAAGAAAGACCTACCCAGGAAGTCGCACTGCAGACATGCCACTCCTCTGCAGGTGTTTGGAAACTGAGCTCAGATATTAGCCAGGGCAGCTCCCTAGGATAACTGAACACGGAGATGTTCACAGGGGTCTCTGAGCTGGGCTCCTGCTGGGTGCTATTCTTTCTAGCATCCCTTCTGAGGGTTCAGAGGACTCTCAGATGGGCTGTCAAGGACCTAATGAAGTGCAAAGCAGAGAATAAGTGAGACATGGTCATTGGCTTTCACATATACTAATATCCCCAGGAGGATGGGCTGAGCACTAAATACCCGTGGTCTGACCCAGGTGTCCTGTTTTAGGAGTCACGCATTCCCGTAGGCTTAGTGTAAGCTGGTTTCACATGCAATTCAAGGCTCAGAATATTTTTAGAAATTGTAAGAACAGCTAAGAAAAGATGCCTAAAACTAAGCGGCATTAAAATATCTTTCTTTCAGTTAGGGAAAAATGAAGAATGCCCAAAACCTTCCAAGGACTCAGAGCTCCTTATTCTGCAGGAGCTGGGATGGTCAGGGGAGGCTGGTAGTCACCTTGAGCGTGTGAGGTGAAGGGGAATCAGAGATATCTTTCCTATGCATGAATTTGGCTTTTATTAGATGAGCAAATCTCAGATCAAAGGGTTTTCTTCTTTTATTTTTCTTTCTTTTTCCTCTCAAATCCAAGTTCTAAAGAGGCTGGGAGCTGACAGCGGGCTTCCTGGCAAACATGGAAGGTGCAAAGGAGTTTCAGTGGTTGCTGAGATTTATCTGTTGTTGGGCAAGTTGTAGAATGAATTGCTAAGCCTGGGCCCAGTGTTTCTTGACCTGGGTTCACTGGCTTAACAACCTGAGTGACAGCCCAGAGGCAGGAGTTTGGCAGAGCCGGTGGAAGGGGAGAATAGTGGGGGATCTGGGAAGGCAAGGAGCAGAGAGGAAGAGGCCCTCTGCATCTGCTGCTGCAGTTCAAGTCAGCAAGAAACTCCATGGGGAGATTCCCATTTTAAACTGTTCATCTTCAAATTCTTCATGCAGTCTATTTTCTGCTCTAGTAAGAAGACACACAAGTGTTTGCCTTGCAGACACGAAAGAGCACTTTGGCTTGGAGAGAAATCAATGCAGGGCATGGGGGAGGGAGGAGTGCTGCAGATACACAGAGAACCCAGGCCTTCTGCCAGGCTTAGGAGAGCTCTACCAGCCTAGCACCCATGCATAACCTTGGGCCCTATCCCTCCTCTGCTCCTGGAGGAGAAATGCACTCTCATCTCACCTGGGTCTCTGCTGAGGCTCTGGGTTGCTGCAAAAGTCTGCAATAACAAGTGGGTATGGTTGTGTAAGGCGGGTAGAACTGAGGCAGTCTAGGTTTGTCCTTAGCTTACGAAGGAAATTGACCTAAGAAAGCTGATCCCTGAGGAGCACTTAGTGTTGGAGATTAATGGAAAGTGCTTCATTATTTGCTTCATGGTATTAGCCACAATCTGCAGATCTTGTTTCTCCTTGCTGCCATTCTTGTGAGCAGGTGAAAAACCATATCATGAAAGAGATCAGAGAGATGCTTTTTCACTGTACCTCAGTTTATGGATTGTTGGTGCCACTTTGCTAGGCTCTCTCTGGGTAGCAAAGACACAACAGTTCAATGTGATGAAATTGGACAAGACTTTTCTTGCTTTTTGCATTTTTTTTTATGTAAGAATAAAATATATATCTTAGGAATTGTAACCAAATTCTTTGCAACATGATTATATTAATTTTCCTGTAATAACATGCTGATCTTTCTCATGAAACAACAATGATTTTTATTGCAGGAACAGTGTAATTAAGCATACAGAGATAGATGTCTTAATGTAGACACTTCTACAGAAGATCTTAAACATTGACATTATTACCATTACTGAATCATAAAATAGCTCAACTCATCTTTGTGTCCCATCCAGTACTGTGAAATATCTATAGGAAAACAGACAGTACTCTCCATGAGTGCCCACTTCGAGGCTGCCTGGATAGGCCTTTTTATGAAGCCCACTTCTGGCTGAAGTGCTGCAGTTCCCCGCTTCTGGGGAAGTGCTTATGGGGATTAATGTCTCCCAGCCATACCTGCATGACATCCTTTCTGCCGCTGCTTAGTCATATGCCAAGCTCTGCCCTCACTGCTGTACAATACAGAACCATGAGGCAGATGGTGGGAGAAGAAATGAGGCTGCTGGGGGCTGAGCAGGCAGAGGACTCCATTGACTCATTGCAG
Seq C2 exon
GAATGGATGGACCACAAGCTCTCCTGGAATCCAGAGGAATATGGTGGGATCACTGCTATCCGTGTCCCTTCTGAGTCCCTGTGGCTTCCCGACATTGTTCTGTTTGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015384:ENSGALT00000024820:3
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:
PF0293118=Neur_chan_LBD=FE(6.8=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(17.6=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]