GgaINT0049234 @ galGal3
Intron Retention
Gene
ENSGALG00000003553 | E1C7T0_CHICK
Description
NA
Coordinates
chr7:4264399-4266373:-
Coord C1 exon
chr7:4266196-4266373
Coord A exon
chr7:4264618-4266195
Coord C2 exon
chr7:4264399-4264617
Length
1578 bp
Sequences
Splice sites
5' ss Seq
CATGTACAT
5' ss Score
-0.68
3' ss Seq
TATTCATTTTTCCCTTTCAGATC
3' ss Score
12.78
Exon sequences
Seq C1 exon
GTGCCCCCCCGCCTCACCTGGAGCCAGAACCCACTGATCTCACCTTGGGAGTCTCCCTCCATGGCATAACAAAAGTTTATGGATCCAAAGCTGCAGTGGACAACCTAAGCCTCAACTTCTATGAAGGGAATATAACTTCCCTGCTGGGACACAATGGAGCCGGGAAAACTACAACCAT
Seq A exon
GTACATGTCCTTTATAGTCGGGATCATTTAGTACCGTTGGGCTCAGCTGGGTGGATATGAGAGCAAGTGGGGCTTTTCAGCATTGGGAAGCTGAATGAAATGCTTTATTAGGACAGATCTCTCTTGTAGTTTTATCGTACTCTTAGATGACCTCAGCGGTCCCTTCATCTACTAGAACTGAAGGTCCTTTTCTGTTTAGGAATATACTTTTTAGTCTGGTAGGATCCCTGTAATACACAGCACAGCAATTGTTCCAGCATTTTGTTCCATGAGGCTTTGGTGCCTGTGGCTGGGTTGCTCTGAAAGCTGTGGGTAGCTTGTGCACCTGTCACATTTGAAGTGATATTAGTGAGAAAGCTTAATAAAGGTATATTTCAGCTGTACAGACTCGTGTGTTGGCTGGGCTGGAATTGCAGTAGGTTAATGCTTTGGTCTTCCAGCCCTTCCAGCATTGCCATTTATAAATTATAGTTTGAGGTGTTGGATAACATCACTAAAAGAAACCTGTAGAACTTGATTTCTCTACTGATATATATATATGCGTCACTCTGAAAGCAACATTAAGCTGATAAATAGAAGCCCCAGAAGAGCCAAAAACAATGAGACAAGACAGATGTGTGCTTCATCTCAGCTTATTATAAATTCATCTCATGTCCTCATTGTAAGTGTAGGCAAAGGTGATGTACAGAAAAGTATAATAGCTTCTTGAAACTTAGTGCAGGCTTCAAATCCTGAGTAAGGTCACAGGGTACTTCTCCTCTCCTTTTTAATGAGAGTTAAAAGTCCCAGGAGAGAGTGCAACTCAGGGATGGCGAAGGGCAATCTGAGATGCATCTTCTCCCTTTAGTCCTTTGCAGGACAGCTCTAAAACCAGCCTATATTGTGCAAGTAGTCATTCCAAGTAGAAGGTGTTTGACTCAGGTCTGCTAGGTACTACTAGGTAGGTAATTATTAGCTTGAACTAGATGAAATTGCTGCCCTCGGTGAGGTGCCTTGTCAGGAAATCCTCCCCCGTTCCTTCTTAATAATGGCAGTGAAATCAGGTTTCTGTGCCATGCTGTGGTTAGTATGATGAAGATGTGGTTTTCAGTCTCTGAAGTGGTTAGCAATGTGAGACTGTCTGGATACTGCAGACAAACCCCAAAGAATGAAGAGTAACTGCATTATGTGAATTCCCAGTGATTAAATTGGAAGTGAAGGGCATTCATGAGTATTGATGTAAGGAACATGCAGTGGTCTGACTTAGGGGAGGGAGAGACCAAGGAAGATAAAAGCATATGTGAAAAGTAGCCAGAGCTCAGTGTGTGAGCTTGGTACTTGCCCTCACAATCCCACAGATGGGGGGGAGGGAGGGGGAGGGAGGAGGATGTTCTTTGATGTTAATTGGGCACTGCTCCACCAAAGCATGGAGAGACTGCAGAAGAAGCTGTGTTCAGTGATTTCTGGCTGCAAGGAGTGTGCTAGTAATGGAAGGAAGCTTGGCAAGTAATGATAACTACAGGAGAATGGAGAAAAAATACCTATGGCTTTCTCTTCTTTTGTTTTTAACTTCCTTTTCTATTCATTTTTCCCTTTCAG
Seq C2 exon
ATCTATTTTGACTGGGTTGTTCCCTACATCATCAGGCACTATCATTGTCTACGGCAAAGACATCAAGACTGATCAGGAAGTTATCAGGAAGAACATGGGTATCTGTATGCAGCACAACGTGCTCTTCAACTACCTTACCACGAAGGAGCACCTGCTGCTCTATGGGTACATCAAAGTCCCTCACTGGAGTAAAGAGGAGCTCTACCAAGAAGTTAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003553:ENSGALT00000005620:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(18.4=45.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(49.7=100)
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:
AGCCAGAACCCACTGATCTCA
R:
AGTGAGGGACTTTGATGTACCCA
Band lengths:
342-1920
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]