GgaINT0124961 @ galGal3
Intron Retention
Gene
ENSGALG00000004512 | SHLB2_CHICK
Description
NA
Coordinates
chr17:5991912-5994248:-
Coord C1 exon
chr17:5994225-5994248
Coord A exon
chr17:5992002-5994224
Coord C2 exon
chr17:5991912-5992001
Length
2223 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
CACCCCATCCTGTTTTGCAGGCA
3' ss Score
8.54
Exon sequences
Seq C1 exon
CTTTGGAGCGACGAGGTGGAAAAA
Seq A exon
GTAAGTACCCAGCTGAAATGGTGCTCAAACCTTTTTGGGGCGCTGGCGGCATTCAGTGGGGGGGCTGCAGGCTCCTCCCCACTCGTGTGGGCACGGGAAAATCGGTGCCTGAGCTGTCAGCCCCGGTCCCAGTGCTGTGGCTGTGCTGCTCATTGCTGTTCTGGGAGGAAGCTGCCCCTGGGCCAGCTGGCCATGCTTAATGTGAAGGATTTCCCAGGCAAACCAGGCCTGCTTGTGATTACGAGCAGCTGGGAGAGCCCTGCACGGGTGTCACAGGAGCAGAGTTGATGTCTGTACCACAGTTCAGCTCTGCTCCTGTGGGAAGGGCCCTGCCTGCTCCAGTGCTGCATGTGCCTTGTGTTAGCAGCCAGGAGTCCATTGCCTGCTTGCCCCGGGGAGCAGGCAGGAGCTCTGAGCAGGGCTGGAGTGAGGACTGAAGGTTTCCTTGTGAACAGCCCCTGCTGATGGAGGGAACGGCTCTGTGAGGAGGGCAGGGTGGGAGCATTGGAGCCCGCCGTGGAGTTCAGTCTGGTGAGCTGCACCTTCCCTGCTGAGGGGATCCACGGGGCCAAGTCCCAGATCTTGTTTATATATATTCTTGGGTTTGTAACTCATCTGTGAAGATGGATGGGCTGCTGACGGACTAAAGACCAGGGTGAACTCTGTGTGGAGCTCCAGCATGGCATGGGGCTTCCAGAGGCACCTTCCCTTTGCCTTTCACGTGTCAGATACCCCCAATCAGATGGTAGCCTGAACTGCAGGGGGATAGAATGGCACATTCCTGCATGCTGTGCATGATAGCATCCCATTGCTGCCTTACTCTAAATGCATCGTGAGAGCAGACCAGCCGTTCTTACTTTAAATTCTTCTTCAGTCCCTCAAACAAATGAGCTGACTGCAGTCACAGGCACGCAGGGCTCTGTTCCTTTAGTCCTGGTTGGATGGACTGAAGTGTTGCTGTTGTCGGTCACGAGTTTCAGACAGCTCTACCACTACTGGAGTCTCTGCTCTGCAAACTGAAGCAAAAATCTTGGTGCTTGATAAGGCTCTGTACTGAGATTTTCCTAGCATAGTCCCCTCTTCTCCTTTAAATAATCCCTTTTATACAGAGGATGCAAGAAAATAGATCGTTTGTAGCTTAAAATAGGCAAATCTGATTAAAAGACAGTCAAAGCATTTATTGCTTCCAGCCTATTCATACAGCAGTACAACTCACACGTCCTCCTTGGTGCTAAGGAACGGGGACAAATAATCCTGTTTGTCACCCTGTGGTGCTGGGGGGAGAGCGGGCAGCAGAGCCTCAGACAGCTCTGCCACTTCTGGAGCTCTTCTCATGCAAGAAATCATCGGGGTGTTCTGGTACTGCAACGCTGCCTTAGTGGAAGTAAGCTGTTTGCTGCTGGGGGAAGAGATGCTCTGTATTAGGCAGAGTCTCAGGTGTCAGTTTGTCTTCGAATTCCCAATGTCTACTGCATAGCTGCCTTCTGATAACCACGGTTGAATTCCTCCTGCTCAAAATAAGTAACTAGCCTTAAAGGAGAGCCTTTGGTAGAAGCTGGATCGTCATCTCAGCTGGAGTGTAGTTATTAATCTGGGAAACGCTCCCTGGCCTCAGCCTTTGTTCTATGGTGATAAAAAGGACACTGGCAAAAGTGGCACTTCTGGAGAGACCTGAGGGATAGGAGGGGGTGTCAGCAATGCTCCACAACTGCACTTTGGAGCAGACTTGCAGGCATGCTGACAAGAACTGTCCTGTTTCCAATGACACTTTGCTTGGGGCGGACACTGATGTGCAGCGCTGGCTGTGCGGTTCGTGGAGCACTACAGCAGGCAGTAAAGGGATGGGTGGTAGCGCAGCGTTGGCTTTCCACCTATCTCAGGATTAACACAACCTCTCCAACCTCATGTTCTAATTTAGGAGCATCCTGGCTTGACGTATCAGTCTTGAGCTGTCATGCCATGAGCTGCAGTGATTCAATGAATGATTGAGCAGGAATCAAGTTGAAATACAGCCAGAGACCACTGGGATTCCAACCCAGGGTGTCCTGTGCCTGGCATTCAGTGCCACACGGACCCTACTAAGCCATCACCACACTCATCTCAGTGCCAAAAGGGGAGGAGGGGTTAGAGGAGGAGGTGGGTATTGGCTTCCCCTGGAAAAAGCAGAACAGGGGTCCTTGCTCCTTGCCTTTGCTGTGTCGAACACCCCATCCTGTTTTGCAG
Seq C2 exon
GCAGAGCACGAGCTGCGGCTCACTCAGACCGAGTTTGATCGGCAGGCAGAGGTGACACGTCTGCTGCTGGAGGGGATCAGCAGCACACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004512:ENSGALT00000007187:7
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=0.167
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(2.5=100)
A:
NA
C2:
PF0311413=BAR=FE(10.5=100)
Main Inclusion Isoform:
NA
Other Inclusion 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]