GgaINT0004825 @ galGal3
Intron Retention
Description
NA
Coordinates
chrUn_random:62783811-62785406:-
Coord C1 exon
chrUn_random:62784235-62785406
Coord A exon
chrUn_random:62784009-62784234
Coord C2 exon
chrUn_random:62783811-62784008
Length
226 bp
Sequences
Splice sites
5' ss Seq
CAAGAGAGA
5' ss Score
-2.92
3' ss Seq
GCACCAGCGAACCCACACAGAGG
3' ss Score
-2.32
Exon sequences
Seq C1 exon
GGGAGAAATCAGAAGGGATGTCGCAGGAGGCCTGGAGCAAGGTCAGGGTGAGCACATCAAGAAGGCACTGGGAAAGCATCTGGAAGAGAAAGCAAGGAGCCCACTGCACTTCAACATAGGTGAAAAGCAGGCGGAAGGACCCAGGAGCAAGGATGTGTGTCCGATGAAAAAGCAGAATCCATGCACTGAGTGTGGGAAAAGCTTGGAAATAGATTCCAGTGTCATTAACCACCAGTGCAGGCACGCAACGCAGAGCCTGTACAAGTGCTCTGAGTGTGGGAAGAGCTTCAAACGGAGAGCCAAACTGAAACGTCTCCAATGCATCCATACAGGATGGATACCCTACAAGTGCTGTGAGTGTGGGAAGAGCTTTAAAAGGAGTTCCCACCTCACCTGCCACCAACGAATCCACACAGGAGAGAGACCCTTTCAGTGCTCTGAGTGTGGGAAGGGCTTCAACAGCAGTTACAACCTTACCTGCCACCAACGCATCCACACAGGAGAGAGACCCTTTAAGTGCTCCGAGTGTGGGAAGGGCTTCAAAAGCAGTTATGAATTGAAGGTGCACCAGCGCATCCACACAGGAGAGAGACCCTACAAGTGCTCTGCTTGTGAGAAGAGCTTCAAAAGCAATTCTGAATTGAAGCTGCACCAGCACACCCACACAGAGGAGAGACCTTACAAGTGCTCAGAGTGTGGGAAGAGCTTCAGCAGAAGTTCCCACCTCAACTTCCACCGGCACGTCCACACAAGAGAGAGACCCTTTCAGTGTCCTGCGTGTGAGAAGAGCTTCAAACGCAGTTATGAATTGAAGAAGCACCAGTGCATCCACAGAGGAGAGAGACCCTTTCTGTGCTCTCAGTGTGGAAAGGGCTTCAAAAGGAGTTCCCACCTCACCTGCCATCAGCACATCCACACAGGAGAGAGACCCTTTAGGTGTCCTGAGTGTGGGATGACCTTCAGAATCTGTTCTGAATTGAAGTTGCACCAGCGTATCCACACAGAGGATAGGCCCTACAAGTGCTCTGAGTGTGGGAAGTGCTTCAAAAGGAGTTCCCACCTCTCCTGCCACCAGCACATTCACACAGGAGAGAGACCCTTTCAGTGTGCTGAGTGTGGGAAGAGCTTCAAAAGAAGGCCTGATTTGAAGCAGCACCAGCTCATCCACACAA
Seq A exon
GAGAGAGGACCTTTTAGTGTTCTGCGTGTGGAAAGGCCTTTAAAAAGTGTTCTGAACTGAACCTGCATCGGCGCATCCATATGGAGGAGAGACCCTTTCAGTGTCCCGCGTGTGGGAAGAGCTTCAAAAGAAGATCCGAGTTAAGGGAGGCCCTGCAAGTGCTGTGAGTGTGGGAAAAGCTTCAAAAGCAGTTCTGACTTGAAGCAGCACCAGCGAACCCACACAG
Seq C2 exon
AGGAGAGACACTACAAGCGCTCTGAGTGTGGGAAGTGCTTCAAAAGGAGTTCCCACCTCACCTGCCACCATCGCATCCACACAGGAGAGAGACCCTTTCAGTGTCCTGAGTGTGGGAAGAGCTTCAAAAGCAGTTCTGCACTGAAGCGCCACCAGCGCATCCACACAGGACAGAGACCCTTTCAGTGTCCGGAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021967:ENSGALT00000035508:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.060
Domain overlap (PFAM):
C1:
PF132401=zinc_ribbon_2=WD(100=9.4),PF0009621=zf-C2H2=WD(100=4.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF0009621=zf-C2H2=WD(100=5.9),PF134651=zf-H2C2_2=WD(100=6.4),PF134651=zf-H2C2_2=WD(100=6.6),PF0009621=zf-C2H2=WD(100=5.9)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=38.8),PF134651=zf-H2C2_2=PU(71.4=29.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGTTGCACCAGCGTATCC
R:
AAGGGTCTCTCTCCTGTGTGG
Band lengths:
292-518
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]