GgaINT0073582 @ galGal3
Intron Retention
Gene
ENSGALG00000012004 | F1NH25_CHICK
Description
NA
Coordinates
chr4:56604717-56607225:+
Coord C1 exon
chr4:56604717-56604997
Coord A exon
chr4:56604998-56606923
Coord C2 exon
chr4:56606924-56607225
Length
1926 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
AATTTTGGTCGTCTTTTCAGGAA
3' ss Score
8.99
Exon sequences
Seq C1 exon
GTATGGCAATAACACTAGGAACTATGCCGTGCGAGTTGGAGATTATCATACGCTGGTACCAGAAGAGTATGAGGAAGAAATTGGAGTCCAAGAGATTGTGATGCACAAGGAGTACAGGCCTGACAGTAGTGACTATGACATTGCACTAGTGAGGCTACAGGGGCCAGAGGAACAGTGTGCCAGATTCAGTACCCATGTCTTACCTGCCTGCCTGCCCTTAAGGAGAGAGAGACCACAGAAAACTGCTCCTAACTGTTACATCACTGGATGGGGTGACACAG
Seq A exon
GTAAGAATACAATGATTTCCACAAGCTGATCACACTGCCTGAGGTTGCTCACTGAAAAAAAAAAAATAATAATAAATGAATACTGAAAATAAGGAAATGCTAAAAATTGAACAACTTTACTCTTTTTATATATGGAAACATTTTCTCTCTTGATCCTTAAAGAGGAACACCTTGTTTACTGAATTTACTTTGTGTTTGAAATGTGACAATTAACTATGTGACTCAGAATCATAAAACCAGTCAGTATAATAGCCTCATTAAGGTTAACAAGCAAGAATGAAAAGCTTTTTTGTTGCAAGGCTCACGCTGGATAGCAGATCATCACACCCTGCCTCAGAGCATAACTAACAGCTCTCATATTTAGGGATTTTAAGGTGAGTACAAGAAATATTTTAGAAAGATTTATTTTGATAGAAAAAATGGATATAAAAATATGCATAGTGATATTTCAAATAACATTTTTTAGTCTGTCTTGTTACCACCACCATTTTCAACTAGCCTGTTGCATTTACATGAGAAAACATGTTGCCAAAACTTGACAGCCACAATGCAATCTGCAATCCAGGCTTCTAGAATAAATGAGCCAGCCACCTTTCAGGTCACTACAAGGTTATTATTCTTCAATAGCCTTGGCCCTTAAAATATTTTACAAATTAGTAACCATGTTTTACTTCTGTGTCTTTGTGGTGCTGAATACAGCACAAGGTAGCAGCCACACTTGATCCTTCGTTTCACAGTCACATTCACACTGGCAAGAAGGCAAGGCCAAATATCAGTTCTCCCTCTTATGTATTAATCTGTAGGCACAGATGACTAGGTCACTGTGCTACATGTATGGAGACAGACTTGTAGGTTTGCTGTTTTTTGGCTGGTTTTGTTTTTTTCTTCTGACAATTCCTAGTGAATTGCCTAGTCTTGCCTAGCATTTTACACAATTCACTGATAGTTCTGCTATACTGTTTATTTAGGACATGTATTTAAGGAAACTAATATTAGACACTGCAGTAATTGCCTCTAATTATGGTAAGAAATTACATCATTGCAGTACTTCAGTTGAAATTTCACTCTGACTATATGAGTTGTACTTATTTCACAAGTATTAAGATTTTAACTTAAAAAAAGAACAAAAAACTGATCCAATGGCATTAGTGCCCCATGTTTGCAACTGAAAAAAAGAGCTACGAGTTGGGAGAAAAAAGCCATTTTATTAACAGAACATGGCTTTTAAGATGTGGGAATTGCTACAGAGAAAGAAAATCCAAGAACAGGTTGTGGTCACCTCCACAAATTAAGATTCCTTTTGGCCAGGACTTCCAGCAGTACTTTGATGTAACGAGGTATCAAGATTGCAAGTGATTCCAGTGATACTGCCCATCTATACCAGAACACACTCAGGCTCTATAACACAACCTCCTCAGCTGAGGGGACAAGCAAGCATGTGTGCATTAGTTGGCTCACATCGCAGTGGTTGGCTGGATGCTCCACTCAGAAAGTGACAGATGGTGCAGCACCACTGAACAAAACTAACTCTGAACGGGTTACTTAGAAATAATTCTAAAGCTTCAAACTCCTCTGCTCACATCTCAAAAACCAGCTTTCTCACTGAAGTAATGTGATATATATTCCTCTAAAAATCACAGAAAACGTGTTTGAAACAAACGCTAGCCTTGGGATGATCCAGTGAGGTGTAAAGCTACATCTGAAACTTTTAGATTTTAAAAAAAGAATCTGCTTTCCATATTTACAATACGTTTTTAGTATTTCGATTTTATATTTAATGCACAGGTTCTTTTCAGTATTTAGTATTCTTTTCAACGTATTTAATGACAAAACATTGAGAAGGATTGATAGTCTAAGTTGGCTTAAATGCTACTTATGTTTCCAAGACAAGGCACCACAACGCGATAATTTTGGTCGTCTTTTCAG
Seq C2 exon
GAAGGGCTTATTCAAGAACACTACAACAAGCTGCCATCCCCTTACTTCCCAAGAGGGTATGTGAGGAGCGTTATAAAAGAAGATTCACAGGAAGAATGCTCTGTGCTGGAAACATCCAGGAACAGAAACGCATCGATAGCTGTCAAGGGGACAGTGGAGGACCACTGATGTGTGAACGTCCAGGGGAAAGCTGGGTTGTGTACGGTGTGACCTCCTGGGGCTATGGCTGCGGAATGAAAGACTCTCCAGGTGTCTACACAAAAGTTTCATCTTTTGTACCCTGGATAAAGAGTGTGACCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012004:ENSGALT00000019591:11
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:
PF0008921=Trypsin=FE(57.3=100)
A:
NA
C2:
PF0008921=Trypsin=PD(12.2=90.9)
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:
TGCACTAGTGAGGCTACAGGG
R:
AGGAGGTCACACCGTACACAA
Band lengths:
356-2282
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]