GgaINT0059810 @ galGal3
Intron Retention
Gene
ENSGALG00000006998 | Q5ZKF9_CHICK
Description
NA
Coordinates
chr5:17688673-17691197:+
Coord C1 exon
chr5:17688673-17688996
Coord A exon
chr5:17688997-17690990
Coord C2 exon
chr5:17690991-17691197
Length
1994 bp
Sequences
Splice sites
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
3' ss Seq
TCTGTTTTGTCTTGTTCCAGCTC
3' ss Score
10.23
Exon sequences
Seq C1 exon
GACAGGAACGAGAAATCATAGCAGATGATCTACCTCATCCATTTGGATTGACCCAGTACAGTGACTACATCTACTGGACAGACTGGAATCTTCACAGTATAGAAAGAGCAGACAAGACCAGTGGGAAGAACAGGACACTTATTCAGGGCCATCTGGATTTTGTGATGGATATATTGGTCTTCCATTCTTCACGTCAGGATGGCTTGAATGATTGTGTGCAAAATAATGGTCATTGTGGTCACCTGTGCCTTGCCATACCAAATGGATTTAGATGTGGCTGTGCTGCTCACTATACCTTGGATCCCAACAGCAGGAACTGCAGTT
Seq A exon
GTAAGTTTTTTTTGTTTGCTACAGTGTTCTTCATTGCTTCTGGTTGCCAGGTGCTTGTGATCACTTTCAGCATAGAACGCACTAGGCAGCTCAGCAGCACCCAGATACTTGCTCACTAACCCACAGCACAGGGGAATAGGATCAGTCAGAAAAGGTGCATGTGAGAAAATTCTAGTTAAATGGGAAGACAGACTCCATAACTCCAGATGCTTCTCACTTCTTCCTCCTTTCCCCACTTTTTTTGCTGAGCATGACATCGTATGGGGTGGTACATCCCTTTGGTCTGTTTAGGTCAGCTGTCCTTGCAGTGTCCCTACCCAGCGTTTTGTGCAGCCCTGCCTGATGGGCTGTGGTGGGGCAACGTGAGCAGCAGAAAAGGCCTCGAGGCTGTGTAAGCACTGCTCACCAGTGACTAAATTGTAGGTGTGTTATCAACACTGTTCTGATCAGAAATCCAAAACATAGGACTGCACGAGCTGTTATGAGGAAAATTGTCTCAGTCGAAACCAGTACAGTCTCCACCCCTTATTCCATACACTGTCATGCTCAGGTCCTGTGCTATCCAATACATTCTCATTAACCACAACCTCCATTCTCATCCTTTGATTCTCATACACAGATATTATTCCCTTAGTCTGTAACTCCCTTAACCTGTTCTGCACAGCCTTACCCATGGGCTGTGGTCCTTTCAGGGGCATATTTGCTGTATCATGGCCTTATCTGTGGTTACAGATGCTATGGGATATACCTGCTTCAGACTTATCCATGTGCAGAAATGCTTTGGGTGCACGATTCTGTGATTCCCATGTAGGCTTATCCACAGGTCACAGTCCCTCTGACTTGAATTCATGCTGTAATTCCAGTCTGCCCAGTACAGCAGCGATGCAACAGCAGTAGTTCCCTGGCCATCTGCCAGCCCGGGCTCATGTCCATAGCTATTATCAAACTGTTTCCAGGCGCAGTAGAGTAAGATGATAAGGAGTGCAGCAAACAACAAAAATGCAAGCGGCAGCCGCTAACGAGTGCTCCCAATACACAGTAAGCGAGCAAGTTCTGGGGCATGAACAGGGCCTGCCAGTTAGTAGGTGAACAATCATAAATATAGTCTAACACACTCCAGTCAAATCTGCTATTATCTCAAACTCTTCATGCTTCATTCTGGGTGCCAGGAAGGACAGTTGTAGGTTAAATCTGGTAGGCAGCTGAGCACAATGCAGCTGCTCACTCATTCCCCATTCCTTGGGGTGTCAACAAGAGTTGTACTTCAGCACCAACCACTTCCAAAGGAGCTCAAACTCCTTTATACACTGCCGATATCTCTTATTTGGAGTACAACAGGCCTCGCATTCTCTGTAACCCCAACTCCAAAAGCTTGGGGGTTGACCTGAAGTCTCTCCTGCTGCTTTCTTCCAGGAACTCCAAGTGGGGCCATTCTCACCGGCTGCTGTGTAGAATGCATTTTTTTTTATATCTCATGCTGCTTGGCTGGCCAAAGGGACACTGTATGAACTATCTCCCTTTAAATTTATTCAGGGGCTTGTTGTTGCTCTGGGCCCCATTTGAAATTGTACTTTCAGGACACTTGGTATGAGAGGGTTTACAATCAGACTGATTTGGAATATGCATTCTCCAAAAATCCACAGTGCAAAAGAAAGCTTGTGTTTCCTTTTTGCTAGTTGGTGGAGACATCACTGTTATTTCACTGATCACAACCATAGGGATCTGACAACTTTGGTTTTGCTGTTTTATTCCTAGAAACTGGGTCTCCTGTGCAGGTCCCTTGATCTTACTTTGTTTCATGTCAAAACTGACTTTCAAGAGAATTTGGACTATTTTCTTCCTTTTCTCAAAAGCTTATTTAGTTTTCAATGTGAATATGGTTGTCCATTTGAGATTTTATCCTAAGTGTTCTTTGTCTTTTGTGTGTTGGTTTCTAACAGTATGTTTGACCACGAGTCACATTTTCTTATGCCTTCTGTTTTGTCTTGTTCCAG
Seq C2 exon
CTCCTACCAGTTTCCTGTTGTTTAGCCAGAAATCTGCCATCAGCCGAATGATACCTGATGATCAGCAGAGTCCAGATATCATCCTGCCTATGCATGGTCTAAGGAATGTGAAGGCTATTGATTATGATCCCTTAGATAAATTGATTTACTGGGTAGATGGGCGTCAGAATATTATAAAAAGAGCCAAAGATGATGGCACTCAGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006998:ENSGALT00000011330:11
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=0.098
Domain overlap (PFAM):
C1:
PF0005812=Ldl_recept_b=PD(45.9=15.6),PF0005812=Ldl_recept_b=WD(100=37.6),PF146701=FXa_inhibition=WD(100=33.0)
A:
NA
C2:
NO
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:
CAGGGCCATCTGGATTTTGTGA
R:
CTGACGCCCATCTACCCAGTA
Band lengths:
348-2342
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]