GgaINT0124959 @ galGal3
Intron Retention
Gene
ENSGALG00000004512 | SHLB2_CHICK
Description
NA
Coordinates
chr17:5998602-6002447:-
Coord C1 exon
chr17:6002355-6002447
Coord A exon
chr17:5998665-6002354
Coord C2 exon
chr17:5998602-5998664
Length
3690 bp
Sequences
Splice sites
5' ss Seq
GCGGTAACT
5' ss Score
6.77
3' ss Seq
AACTCTATTCCCCCTATTAGGCT
3' ss Score
6.34
Exon sequences
Seq C1 exon
AAAGAGCGGAGGATCCTGCAGAACCGCCGCCTGGATCTGGATGCCTGCAAAGCAAGGTTGAAGAAAGCCAAAGCTGCAGAAGCAAAAGCAGCG
Seq A exon
GTAACTTTTTCTCTCATTCCCTCTGTCCTTCTGGCCACGAGGTTTGACCCACATGAGCAGTTCCACAAGCTGTCTGGACAGAAGTCAGGCTGCCCTACTATGCCCAGGCTCTGGCAGGCATAGGTGGGAGGATTTCTCATGTGGTATGGAAGGGAACTGTGAGCAGGCACAGTGGGTCTGTTCCTCAGATACCCTTCCATGGGAAAGTTATTGAAAGAAATAGTTCTGAGCTGCCAGAGGCTGGAAACTCACACTTAAGCCATGCTCCTGTCTTCTGACTGACAGCGGTTCCCGGCTGTTCAGGTTCTAGCTGGGTAATTTGTGTTAGTAACTAAAAGGCCATAACTTCTGAGGACTTGCTAAATCTCCCTGGGGACCTGAAAGCAAGCAAAGAGAGAGCTGAGCTGGAAGGTGTACAAGAGGAAAGCATGCTGGGGCTCTGAAGGAGTCCCAGGGTTTCAGACTAGTTATGACTTGGCCAATTTGGTCTTTCCCAGGCAGAAGTGTGGAGGCAGCCTGTAAGGGGTAGCCAGGGTCAGACTGGCTAACAAGAGGCCCTTGCTTCAGCCTCTCTATTCTCATTGTTCATGGTGCTGTCTGGTTACAGGCTGGTATTCCCCTCTGGCTTTGGAGAATTCATGGCTGGTAGGCATGAAGCTCCCAGGACAGTGCAGAAGGGAACTGCTAAGCCAGTGTCCCACAGGCCTGAAACATGGGGATGTGGAATAAGGACTGCAAAGTTCTCTGAGGCCTTTCAGCTCAGGGCTGTTCTCTGGGCAGAGACCAGGTAGCGGGAGGCAGAGAGAATGCAGCTGGGCATAGATGGGTTCCCTGGAGGACCCTGTTGAGGCAAATTGCCATCTTGTACTGCTCTGGCTGTTGACACGAGGACTTGCTAGTGGAAGCAGTGACTATTGCTTTATCTTAGACTTAAGTCAGAACAGGAATTTAGAGAACTTGTATGCTTCCTCCTTTTCTACTCTCTTCCTCTTTACCTTGCTTCGAATATGAAGTGATCCCAAGGCCTCTCAGCTGTAGAAAGACCCTTGGATGGGGATTTCCTGTAGCTAGAGAAGAGAAACCTGGTCTCCCCCTGGAGCTGCAGTGCTGATGCTCTCCAGACAGGATGCAGAGCCACTCTAAGGCTCTCCAAGCCATGCTCGAATAGCTCTGCTGCTTTGAAACAGATCACCACAACAGAAGAGCAACCTCACAGCTGCTGTTGTGGGCACCCAGCTCTGACCCAGTTTAGCTTGAGGGTGAGGTCCCTGGCCTCAGGCCTCAAGGTCCCTTACTAACTACCTGGGGAAAAGGCACGAGTGAAGGCATGGAAGGGTGAACTGCTGCCTCAGCATCAGGCAGGTTAACTCGTGATTAGACCAGTGCTCCCTATAACGTGCCTGGAATCCTGTGCCATACCTCTCCATCCAAGCTGGCCTTAAGTACCGCACCTTCCCCAGCTCACCTCTCTCTTGCTGCTGTTCTCCTTTGTAGTGCAAAACTTGTGTTCCCACAGCTTTTGTCTTGTGACTGACCCTCCAAGTATGCTGCTGCCCAGACCCTTAAGCTGCTGTATGGGTTTCTGGGCTTGTGCATTTCCCTCAGACTTTGTGCTTTGTCCTTCCTGTTGATGCCGTTTTGTTTACTAACCTTTTTGTTTTGTTTCTTTGTAATTTGCTCAGTGTGAGGGAGATGTGAGTATTGACTGTGCTAACAGTGCTGTGATTTTTCTTTAATACCTCTCATTGTCTCTTTCCCATTTTCAATGAAAATTCATAACTCCCTTGTCCCATCAGTAGTGGCCCTGGAGCATGTACTGGTCAGGGCTGTGGCTGCCAGGGAAAGCTGTCCCAAAGGATGGGAGCATTTGTCAGCTGCCTGTAGCTCCTCTAGAGCAGGCATTCAGATCACTGCTTGCAAGCAGTGCTTGAAGGAGGCAGGGGCTCACCAGGATGCACTCAGGCTCCTCTGGCTCCAGGCAGGAGGAGGTCATCTGGGTGGTGAGTCCCTCTCCTGGAAGAGAGGAGGTCCAGAGACAATGACGGGCAAGTTGATCTGGTTGTGGTGCTGTTCTGGCCTTCAGGCTCCAGGGCTCTGCCCATTTTCTCTACTGTAAGAGGGGAGGGAGGTGTTTCTTTTCACCACTGCTTGCAAATACAACTTGCCCATGCACAGGAGTGCAAGAGTAGTTTGCCTCCTTCATCCCATGTGCTGTGACTAGTTTTGGGATTCAGTGGAGAAACAGGAAAAGGGAGGAGAGATTTCTTAAATTGCTTTTGATTCTAAGACAAAAAAAAAAAGAGCTGTTCCTGGGGAACATCTCCTCTCCCCACAGAGAGGAGTCAAGCTTAGTTACAATGCTAGCCTCAGATTTCACTGGTGCATTTTTCATCCTTATCCTCAAGTTTGACTTAAAATAGGAATCACTCCTCCTGATTGCTTCCTCCTGCCATCCCCAAAACTCCTCGATGGTTGAAAAATCTCTTCTTGCTGGGACTGCCTGAATGCTCTTCCATACACCAGTCACTCATCCCAGCAAGCTGCTCTGGGCTGCTGCAGCTCCCAGCTAATCGGGTCAGTTGGTATAAGTAGATCTGGGTGAGCCGCAAAGAGATTAACCTGGGAGAGGAAATGTGGGGCCTGAGAGGATTAGAAATCCAGCAGGGTTACAGCTGACATGTGTGCCCACCTTGCACTCCAACCCATGGCACAATAAGGGCTGCCCAGGGCTGGGCCTTATCTATTGCACTGCTGTGATGGCCCCGAGGTAGGCTAGCAGGTTGGCTCATCTCTGGGTGACATTACAGCCAGAGGCCATTCTAGGAAGGGGCCTAATCTTTTCTTAACTGAAAAGATGATTGTTCCATGATGGCTAATGAGCCCTCACTATGTGTGAAGATGGACCAAGTCCCCTGCATTCCCAACAAGGAAAGCCCCTGGAATGCTAAGTCTTCGTGTCCCAGGGTAGGGGCTTAGCTGTTGGAAAGGTGACTTGGAGAATTTCTGACTTCTAGACTGAAAACTTACATGCTGCCTTTCTTGGCAGCAAAGCATTGGGCTAGATCTTGTTTGGTCATGCCATGCACCTCAATGAAAATAGATCTGAGCCTGTTAGGTGGAAACATGCTAAGATGCTCGGTGAAAGTAAGAACAAGTAGATGTCTCTCCTTAAAAGGCACTATGGAAAGTACATTGTGATGCTAGTAATCGTGTCCTCTTCACGGACGAGGCCCTCACATTTCTAGGACTATGGATGGGAAGCAAGGGAAAAGAAGGTCCTGTCCACTGGACTGAGCCAACATGAGATGAGCAACGTCATGGCTGTAAGGCAATGGGAATCACGTTCAGGGTTGTGCTGTCTCACCTGCACTCCAACTAGCTGCTGTATGAGCTAACAGCTCTAAGTACAGGGAGTTCATAGAAGCAGAAATATCTACTGTTCAAGTACCAGATGTGACTGCATGAGCCTGTCCTCTTCCTCTTGCACAAACCCGACTTCCACCTGGGGACAATTTCCAAGCATCACTGCCCAAACTGTTGGGAGACTTCCCTCCTGCAATCATGGGAATTTGAACTCAGCTTCCAGCACAGAGGGGAAACAACAGCAGCCCCTTATTCTAACTATTGCCCAGCTGATTCCTGTCAACTCTTCTACATGACTTGTACATGAAACTCTATTCCCCCTATTAG
Seq C2 exon
GCTGTGCCTGACTTTCAGGAGACTAGACCTCGTAATTACGTTCTCTCCGCCAGCGCATCAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004512:ENSGALT00000007187:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.095
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(10.9=100)
A:
NA
C2:
PF0311413=BAR=FE(7.3=100)
Main Inclusion Isoform:
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]