GgaINT0126198 @ galGal3
Intron Retention
Gene
ENSGALG00000002626 | F1NH64_CHICK
Description
NA
Coordinates
chr17:8031757-8034202:+
Coord C1 exon
chr17:8031757-8031862
Coord A exon
chr17:8031863-8033719
Coord C2 exon
chr17:8033720-8034202
Length
1857 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CCGTGTCTCCTGCCCCCCAGGTT
3' ss Score
10.05
Exon sequences
Seq C1 exon
ACTCAAAAGGTCTCTCCAACCCGGCTGAAGTGGAGGCATTACGGGAGAAGGTGTACGCATCGCTGGAGGCGTATTGCAAGCACAAATACCCCGACCAGCCCGGGAG
Seq A exon
GTGAGTCACTGCTGCACTGCCCTGCCGCACTGCTCCCCTAGGAGTGGAGGAAAGTCCTTGTCCCCCTGCTAGGCATCGCCTCACAGCCCAGCAGGACCGGTCCTGGGGAGCCCAGGCTCTGCTGGAACGCCCACAGGGGTAAGGGGTATCGTTTCCCTTTTGGAAACCACGGAGAGCAAACCACAGCTGAAACAAGACGCACACGGAGTTAATTTTCAGTGGCAGATGAGCATCATTGCTGGGAAGTGAAAGCCTCAATTGAAGCTCCTCTCTCCTCCCTGCCTCCCCCAATCCAGCTGGGAATGGGAGGGGGAATTAGGAGTGCTTTCCTGGACCGCTCTGGAGCTGAGTGGGTGCATTTTCCCAGTTACAGCCCTGAAGCTGGCAACTACCAGTTAAGAGACTGACAGTCATTTGAGAAACCAAGCAGAGCACTGAAAGCACTGCTGAGAAAAAGAGCACTGAGAAACATGGCCTGAGCTGCTGGGCTTCGTGTCTCACCTGCATTCCTGGTCTGAGTGGATTGGAGAGAGGATGCTTTTAAAGCAGTGGGTGCAGTGGGCAGTATATTGGACCTGGTTTTGGGATATCAATGTGCTGGCAGATGAAAAAAGACATATTGTTAAGAGGCTTCGTGGTGTCTGTGGTTGGGTTGTGGGGTAGAAAGGTCCTCCCCCAGTAGGAAGCACTCTGAGCTTTGCACAGGCATCCAGAGTCTGCAGTGGGCGTCATGCTGGCACCAGTGTGGACCGTGGAGCTTGGTTTGCTGGCTTTGAATGGATGTGGGGATCTGCTTGTGCCATCTGCACACCCCAGTTTGCCAAAACCTCTAGGGGTAAACCTGTAGGGCTGCTCACAAGGGCCAGCATTGAGCCCTACTCCAACATAGTACCCACTGCAATAAACCCCAGGGGCTCAGCAGCGTTAACTCTTGGGCTATGAGCATGGGGTTACACCCCCCCTAGGGGAATGCTCTCGGAGTGCTCCTGGCACACTGTGATCCCCAGCTGGGGCTGGAAGCAAGTGGTGGAGCATTGCCTGCTCCCTGCTGCTCTGCAAGGAGGGCACGGGCTGTGCGTGCTGCAGGGAGCAGGGCTGGTCCCCCCCCCCGGCACGCTGTGCTGCGGGTTGGTGAGCTCACAGTTAAACATCTCCAAGGGCTGCAGCCATCATCTGGTTTGGTTTAAAGTGAAACTTCCTGAATGGGATGGTAGGGCTGATTTGTTTTTCCTGGCTCTGCTCCCGCTCTTCTCGCCAGCTCAGCAAAAGAAAAAAAGTAAAGGAAAAAAAAAAATAGGGAAAAGAGAAAGAGAAGTGTGCATGCGTGTATCACATCGCTGTGCTCGTGCCTGGCTCTGTGCGTGTGTTTTCTGCTCCCCTTCTCTCTGGGCTGGCTCTGTCCTGAAACCCTGACCGTGCTGCATTAAAGCCAATCGGTTAAAGGGCTTTTCTCCCCTCTGGTGGGCAGTGTGGGGGCTCTCAGGGTGGTCGTGCTGACCCCCCCAGGACCCCTTTCAGTTCCTCAGCTGCTTTCCCTTTTGCCTGAGCACGCTGAGAGCTGCTGCACTCTCCTCGCTGCAGGGACCCCACAAACATGTCAGGCTGCTGCGTGCATTTAAAGCATGGCACGGATACAGCGCACCCAGCCCAGGGATGGCCCTTGATGCCTTATTTTCCTCTTACAGTTTAGCAGATGTTCGCTGTAAATATCCACTACCAGATCTTCAAAGCTGTGGGTGTAATTAATGATTTCCCATTGTGATCTCTTTGCTATGGGAGCAGAAGAGCCCGTGAGCTCCCAGCCCGTGGGCGGTGGAGCTGAGGCCCTCTAACTGCGCCGTGTCTCCTGCCCCCCAG
Seq C2 exon
GTTCGCCAAGCTCCTGCTCCGTCTGCCAGCCCTACGGTCCATCGGCCTCAAATGCCTGGAGCACCTCTTCTTCTTCAAGCTAATAGGCGACACGCCGATCGACACCTTCTTGATGGAAATGCTGGAAGCACCCCATCAAATGACTTAGAGAACTGCCGCTGGCTCAGTCCCTCACCCGGCCAGGGCCACGCGGGCTCCGTCCTCTGCTTCCTCCTCCTCAGCCCCAGCCCCCTTCCCTCTGCTCCCCAAATGCTGGAGGCACCGTCCGAGCTTCTCCGCCTGGTCCCCGGGGCGAACCCGCACCTCCTTGCCGCCTCCTCACGTTGACCCTTCTGTCCGTTCGCTGTCACTGCTGCATCTAAAGACCTCTGATGGCTGTTTCCCCCCTGCGGTAGATGTAGAGGAGTGGGGACGGAGCGCTTCGCATCAGTGCCGGGTGGCACATGGCATGGGAGCAGGGACGGTCCCGTCCCATCCCGGCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002626:ENSGALT00000004139:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=FE(18.4=100)
A:
NA
C2:
PF0010425=Hormone_recep=PD(14.7=56.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAAGGTCTCTCCAACCCGG
R:
CATTTGGGGAGCAGAGGGAAG
Band lengths:
355-2212
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]