GgaINT0124960 @ galGal3
Intron Retention
Gene
ENSGALG00000004512 | SHLB2_CHICK
Description
NA
Coordinates
chr17:5994225-5998664:-
Coord C1 exon
chr17:5998602-5998664
Coord A exon
chr17:5994249-5998601
Coord C2 exon
chr17:5994225-5994248
Length
4353 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGA
5' ss Score
9.63
3' ss Seq
TTGCTCTGTGGTCCCCACAGCTT
3' ss Score
9.23
Exon sequences
Seq C1 exon
GCTGTGCCTGACTTTCAGGAGACTAGACCTCGTAATTACGTTCTCTCCGCCAGCGCATCAGCG
Seq A exon
GTAAGATTGCTTCCTCATAGATGTTGCCCCTCCAACCTCTTCCTGCCCCTCTCTCCACCTGTGCTCAGGTGCCCCTCAGACCCAGTGCTCTGCTGTTTTCAACATTTTAATGTGACATGGGATGCCCAGAGTTCCTCTGACTCAATTGTAGGGATGCAGATCACCCTTCTGGGAGTGCGTTATCAGGATCTGACACTTTTGCTGCTTGGTTTGCTTTCCAGTTCCTCTCCCTGTCCGTTTCCACATTTGCAATGGGAATCTTCTGGCAGTGTTTTTATTGCTAGTAGAGCAACTGAAAGGAAAAAAAGCCCTCAAAGGCTAGCCTTTCTGGGTGGTCCCAACCTTACAAAGACAACATTGCATGATTGATAGCTGACCAGTCGTTTTGATGCTTGGAGGCTTTCTGGCCAGTCAAGAAAAGCAAAGGTGAAAGAGTCTGCCACCCATGGTGCCAGTGACCTAGAAGGCTGACAGTACAGGCTTGTCTATTCTGCAAATACAGGTCAATTCTTTTTACCTTTCAACTTATTACCTACCCTCCTGGTGTCTGCTGTTGGTGGCTATTAAGCAGGCACATGCTGGGGTGGATGTATAGCCTGTTGCATCTCCACTGCGTTGCACTGAGTGGTTGTGGTCAAGCAATTGACTTTCTGGGCTGTGTTGATGGCTCCCTATTGCACAGTGTCACATTTCTCGTTAAAATGTTGAAAACTGATCATCTTGCTTCCTAAGTAGTGTTGAGAACAACACTGATGCCTGTTAATAGAATAACCTGGGACTGAAAGGGCTTGGGAGGGCGATCTACAAAAACACAGTAGGCCCAGCCTACTAGCAAACCAAAACCCTCATGGTAGCAAGTCCGATTTGGTTAATGGGGAACCCATCCCATTTGGAGAAACAGGTATGTCTGGGCCGATAGCATCAGTGTTAGTTCCCAGGGGGATGTCCTGACCTTCTTGGAGAGTGATGCTGGGATCAGAAATAGCTTTGCACAAAACTAGAGCACTATCTCAACAGGTAACTGGCTGGGTGATGAGGCTTCCTGGGAAGAAGCTGATACTGGTGATGCTGCAGCAATTACTCAGTTTCCATCTCTCCTAGCACACAACTAGCATCAGCCTGTGGCTTCTCTGCTGGAAAGGTCTGTTCGAGGACAGTGCAGATACTGCAGTAATGGACTAAAACTGAACTCTAGGAGAATCAGAAGAGAAACTGGGCTTTCCTTGCCTCTGAATAGCTCTGACTAGATCAGCATATCCTGATCATCCCTTGAAGCTTTCTAAAGCAGACCTGAAGAAAAGCATTTGCAAAACGTGCATTAGCATCTTGCAGAGTGCCCAGATGCTCAGTCAGATGTGTCTGGTCATCATCTAACTGCAAGCTGATCTGCTTGCTATACTGCAAAGCTGCTATGGGATCAGATGCCAAGTAAGGTAACACAAAAGGGGAAATGAATTTGGGTTTTTGCTAACCCATGGGTGTCCACCCTGTCACATCTCTGCCTAGGTCAGTGGTCCCTGTTCAGAGCTTTGCTCAGGAGGCTCTGACAGCAGAAACAACAAGGGGCAGTTAGCTCAGAGCAGGACTCTAGCTCATACTTGCTCTAGATAAGCAGTTGGCACTGACTTTGATCAGTTTGAGGGTTGCACAGGAGTGTCTGTGGCAAACACCCCAGCCTAGCCAGCAGTGGTCCTCATGGCTTCCAAAACACCTCTTTCAGAGTTTGCAGTCCGTGGCTGAGTGCCATCTGGCATCCAGCCTGCACTAGCAGGGTGACTTTAAACAGCAATTGAAAAATCTAACCAGTAAAACACAGGCTAAGCCTCGACTGCTCCCCAGCTCAGTGCAGGCAGGACTGCTCTGCAACACGCACTCTAATCCCAGCACTCATTCCAAGGAGTCAGACATTGCAGTGGTGTAGGAGCATTTCATACTGTTGCTTGCTTTTTCCCAGGCCAAAGTCCTTTGTACCACTTCTCTATCAGTACACACAGGTTGTAGAGCAGTCTTTGCTGTTAACCTTGCTTTTAACCGGCTCTCTTCTGGAGGGAGGGATTGCTTATGCCCAGGTAACAGTTTCATCTCGCAGGTGAGTAAACAGGTCAGCTCTTCCCTGGGCCAGATGACCTCAGCAGGGACAGCTGAACTCTAATTTGGATTCTAAACTCACATTGTTGCTGGGGAGAGGTTGATAACCTGGTGCTTTTATTTTTCCCTTCTGCAACAGGAGGGCTTAGTTGGAAATGCATACAGCTGGATACAAGTCCCTTATCTCAGCCCAGTTTTATTTAAGTTGGAAGCTGAGGAGCAATTTCTCCTCTCTCCCACACTGACCTTTTGTTTGTGTGTAAGAAGGTATATCCCCTTCCCTCAGACCCTGCCACTTGCCATGCTGTGTATTCCTAGGAATGATTCCAAGAAAAACATATTGAGTACCTTAAGAGGGTTCCTCTGGCTTGAGCTGGGGTGGAGAAAGACAGGCACAGATCATGGCCATCTGTTCTACCCCCTGAACAGTCTGAAGTGTTTCTGACTAAAACGATGCATGGTAGATCTGGGCAGAGCCAGAATGCCTCAAAGCACCTTAAGGTCAGAGCTGGAGAACGTGCCAGCAAGCCTGACAAAAAAGAAATGAAACTGGCTGAAAGTTCAGTGGGTACTGCAAGGATCAATTGGGTCTGAAATGTCTTTAGTACTGCCCATGCTATCCAAGTAGAAAGACCTGTGACCAAAAGCTTTCCCTGCTGCTCTCTGCTAAGTGTTGCTCTGGAGGCCTCACGCCACAGCAGCACCTCAGGCCAGGACCTGCTTCTCAGCTGCCTGCAAAGGCATTCCCTCCATCACTCTTCTGGAGTGGGAGCTGTTAGGCTGAGGAAGGGCAGGTGTGTGTGTCCCTGTGCACGGCTGGAACTGCCCAGGCCTCGTCTGTGTTACAGTGTGACTCAGAGTAATAAAACACCCATGTGAAGGACACAGAAAGCTCCTGGCCTCACTGCACTGAGTGCTGCACCGAGGACAGCCTGCAGTAAGAGGACTGGCCATAATAACTCCCCAAACAAGGAAGAGATGCCAGCCAGGCTACTCACCATGAAACAGGAGCAGAACCACAGGACCAACAGCTTCCTGCTCCAGCCATTCCCCCATAGCGGCAGCACTGGCGCTCCTTACTTTGCTGGTGGGGCTGTCTGTGCACCTGGGCTGCCACAGCCCACCTGAGGGCAGTTCCTGGTGAACGAACTGCAGCAAAGCTCAGCTGGGAGATCCTGGATACAAACAGAGGGGGTTCTCCTCACACTCCAGCATCCCACCTATGCTCGAGCAGTGCTGTGCTGAACTTCCCCGGTCTGCAGAGGCAGCAGGGCTGAGGCCATCTCCCCCAGCCCCATGGATGGGGGTGTTACTGGGAGGCTGGTGTGCTTCCAGGGAGCCTTAGTGGCATCCCTTCATGTTGCCAGAGCTCAGGAGAAGTTGTCTGCTGAGGAAAGGCCAGGCCAAGGACCTCTGGGAAGGATCAATGTGTTTTTCTACCTCATTTCTCCCTTGCCCATCGCTATGCATGACTTTTGTCAATTGTTTCTTGTCCTGGAGCCAGATCCCAGCAAGCAGCTGTCAGTGTTGTGCTGCCCAAATGTGCCCCCGTGGGGGACACTGAAAGGAGATGGGAGACTTCTGGGGAAGTCTGTCTGAGGAGCTGCCTGCTCTCACCTGCAGGGCTAGAGGAAGGCACCCAGGGAGCAGAGTGAGAAGGAGTAGCTTGATGTTTTGCCTGGCTTGAAGGCAGCATCCAGCCATTGCTCCCTTCTTCCTGTAGCTGAACGTGACCACTGGTAGCTGCAGGCTGCCTGGATTCTGAACCCATTAACCTGAGCTCTCTAGACCAGTGGTTGAGGATTGCGGGCCTCTGACTTGAGCTCACAGCAGTTCCCAGGCCCTATTTGTGGGCTCAAGCAGCTCACCAGCCTCACAGCACTCCTAAAAGAAGGGCTGTCCTTCCACACTGTGTCCTGCAGGCTTCAACAAAGTAACCCATGCACTCCAGAGGACTCTGCTGCTTAACTGCGTCCTCCTGGAGCTCATTAAACACAGTTATCTTAAAAACGCTGGCAGGGAGCAGAGCTGGAGTGCTGGCTTTGGTGGCACAGACTTGCTCTCCCATTGTGAAACCGAGCTCAGGAATGCAGGAGTGAGAGGAAGGGACCCAAGCCTGGCAGCTGCTGCTGGGTGAAGGGCTGGCTGTCCCTGGAGCTGGCCTGCTGCGTCCACGGAGCGTCCTTGCCCATAGGTGTTAATGCCGAGTGCCTCTCGACGTCTCCAACACTGACCTCCTTTCCTGTTGCTCTGTGGTCCCCACAG
Seq C2 exon
CTTTGGAGCGACGAGGTGGAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004512:ENSGALT00000007187:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(7.3=100)
A:
NA
C2:
PF0311413=BAR=FE(2.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
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]