GgaINT0114641 @ galGal3
Intron Retention
Gene
ENSGALG00000017094 | F1P2M4_CHICK
Description
NA
Coordinates
chr1:180351960-180355207:+
Coord C1 exon
chr1:180351960-180352710
Coord A exon
chr1:180352711-180355061
Coord C2 exon
chr1:180355062-180355207
Length
2351 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CGCGGCTTTGTCCTCCGCAGTCA
3' ss Score
9.65
Exon sequences
Seq C1 exon
GGCCATTACTAATAGAGCCTTGTAAACAATCGTTAATCATGTAAGCGCTGCCGGCCATCGCCTTCGGACCGGGAGCGCTCGGCGGCGGCGAACTGCGCGGGGCCGCGGCCCCTCCGCCTGCCCCCTCCCCGCCGCGGGAGCCCGGCCCCGGGCGGCGGCGCTCCGACGGCCCCGGCAGCGGCGCTCCGACGGCCCCAGCAGCATGCCGAGAGCGGCCGCCGGGGCCCCGCCAGCATGTACGTGAGCTACCTCCTGGACAAGGACGGGCCCATGTACCCCGGCCCCGTTCGCCACTCGGGGGGGCTCAACCTGGCGGCGCAGAACTTCGTGGGCGCCGCGCAATACGCGGACTACGGCGGCTACCATGTGAACCTCGACGGCGCGCAGTCCCCCGGGCCGGCCTGGCCCGCGCCCTACGCCGCTCCTCTCCGCGACGACTGGGGGGCCTACGGGCAGGGAGCCCCTCCGCCCGCCGCCGCCGCCGCCGTGCACGGCCTCAACGGCGGCTCCCCGGCCGCAGCGCTGTCCTACAGCCCCGCCGACTTCCACCACCACCACCACCACCACTCGCACGCCCACCACCACGCCGGCCCCGCGCCGCACTGCTCCGCCGGGGGGATGCAGCCTCTCGGCGCCGTTCTCTGTAGCGCCGCCGCCTCCGCCGCCCCCGAGTCGCTGTCCCCCGGCGGGCAGCGCCGCGGCCTCTGCGAGTGGGTGAGGAAACCGGCGCAGGCCCCGCTCGGTAGCCAAG
Seq A exon
GTAAGAGGGGGGTGTGGGACGGGAGCGGCGGGGAACGGCGGCCCGAAACCGACCCTCTCGGGGGCTGCTCCTCCGCGGCCCTACGGGGAAAGGGCCGAGAGCGGCCCCGTGCCGGGACGCGGGGCAGAGCCGGGCCGTCCCCCCAGCGGGGAGAGGGGCTGCGGGGCCGGGGGACAGCCGGGCTGCGGGGCGCGCCGTCGGGCGGACAACCGATTCGCCGTCGGGCTCATCCGGCGTGCGGAGGACGGTGTCGCTCTCCGTTCCGCTCGGCCACTTAGAGCCACTTAAAAGATTTTTATAACCAATTACAGTCATATAAATCATCGGCCGCTGTCGCTCCGCATTCGCTTCTGGCTCGCTGGGCTCCGGCCCGAGGAACCGGGCGCTGCGGAGGCTGCGGCCCCCGCGGGCCGCCCGGTGGGACCCGGAGGTGCGAAGGCGTTCCCCCCAACCCCTCTGCCCCGGGGCCGGCGCCGCGCTCCGTTGTGATGTTAATCCCCCCCACGGCCCGGCCGGGCCCTCTCCCTTTTATATGAGCGGAGCTGCGCCATGCCCGCTTTGAGAGGGCCCGCTTTGCCCCTTCCTCTCCCATTGTCTCTTTCTCTCTCTCTCTCTCTCTCTTTTTTTTTTTCTTTTCTTTTTCCTTCGCATTTTTATTTCCTGATATATTTACGGCCGACAAAATAAGAACGAAAATAAGAAAGGAGCGGTGACTTCCGCGGCCACCACCGACTGCGCCCTCCTTCCCACCCCTCCCCCGGCCCCGTGCCCGGAGCTGCCCCCGGGGCTGCGTCGTTCCCCTCGCGGGGTCGGTGCGGTCCGGCCGGGCCCTCCGCATTCAAATTGCGCCTTTGGAGCAGCGCGTATGGTAATGCGCGGGGCCGGGGGATGAAAGCGGCCGCCGCCATTTGCTCAGTAGTGGTAATTCAAACAGAATGTGGCTGTCATTAAGGCTTTGAGAAGGGTTTTTCTTTGATAAGATCTCCTTGTCCCGCATTGTTCGGGGTTGTGTTCCCCATTCAGAGGCTCTGGGAGCTCTCTCTGATCGCCCTTGTCTCCTCGCGGGGTGCTTTTGTTGTGCTCTGCGGCACTTCACCTGCACGGAGTCGGCCCGAGCACCTGGGGGGATGGGGGGGCGGGGNTAGGGGCTGCCCGCGGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGGCGGGATGGGGGGGCGGGGGTAGGGGCTGCCCGCGGCTCCTCTCCGTGGGAAGGGGGGGCCGGGAAGCGCCGCTTCAATCAGAGCGCTCCGAGAGAGGGGGGCACGGCAGAGCCGCTCCGTCCGCTAGCGTCCCCCGGGCCTTTATTTCTGTGCGGTGTTTTCAGTACGATTTTGGAGCCTCACAGCTGCCCGCCGGGCACAACGCGACGCGCTCAGCTCCCTTTTTCTCCTTCTGAAACGGAGCTCCCGCCCCAACCGCTCTGCCCTGAGCGGGGCTTCACTTTTCCCCATTATTCCCCCCTCCTTCCACCCTCCCCCCCTTTATTATTACTATTTTCTTCTTATTCCCCCCACCGCCCTCTTTCTTATTGCATTTTCTTCTTCCAAAGTTGTAAGACTTCATTCTCGCTGCAAAGCGACCCGGAATGCCACCAGAAGTGCAAACCAAAGTTGTCCCCAGCAAAACGAACGGGGGTGCGGAGGGGCGGGGGGGGCCTTCACACCGTTCCCGCAGCTTTCGCAGCCCCGGGGCCGAGGGACGGCACTCCCCTCCGTCTGCCGTTCGCGGTCCGGGGTCTGGAAGAGGCCCCGTCTCGCTCGCCCCACTCGGCCCTTTCTCTTTTGCTTTCCCAACGCGGCTTTGTCCTCCGCAG
Seq C2 exon
TCAAAACCAGGACGAAGGACAAATACCGCGTGGTGTACACGGACCACCAGCGGTTGGAGCTGGAGAAGGAGTTCCACTACAGCCGCTATATCACCATCCGGAGGAAAGCTGAGCTGGCCTCCAGCCTGGGGCTGTCGGAGAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000017094:ENSGALT00000027613:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.439 A=NA C2=0.265
Domain overlap (PFAM):
C1:
PF047317=Caudal_act=WD(100=92.5)
A:
NA
C2:
PF0004624=Homeobox=PU(73.7=85.7)
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:
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]