GgaINT0112611 @ galGal4
Intron Retention
Gene
ENSGALG00000012751 | STAB2
Description
stabilin 2 [Source:HGNC Symbol;Acc:HGNC:18629]
Coordinates
chr1:54988998-54991266:-
Coord C1 exon
chr1:54991141-54991266
Coord A exon
chr1:54989195-54991140
Coord C2 exon
chr1:54988998-54989194
Length
1946 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
TTTTATTTTTTTTCCTCAAGCTA
3' ss Score
6.97
Exon sequences
Seq C1 exon
CAATAGCTGAATGCAAGGCCTTGCGGTGCCCTGCAAACTCAAGATGTACTACCTCAGGCAAGGATGGCAGAAGACTGCAATGCACATGTCTACCCAACTACCATGGAGATGGTACACAATGTGAAC
Seq A exon
GTGAGTAATTTTTATCTACACAAAGTCTTTTGGAAACAACGACATTAATATTTTAGTTCACATACTAAGTACACCTTTGAAACAAATCTCACCATCATCATGACTTAACTGTTCTTCAATGCATTTCCCAAAGCAATCTGAGATACAAAAACCAGATTCCTTCTGGATCAAACCAAACACTAAAGTACATTCCAGAGGCATATCAGTCCAAAAATCAGACAAAAGCTAGTAATGCACAGCGCTTTGAAATGCATATTGTGGATACTAGGTCATCAGTGCTTACAAATCATTCCTATCACATCACTTGCTAAAGTCTGGCTTCAGTTTTCTTTCATAAAAGCCAACAACACCAATTAGGGGTCTCTACTGGCTGACTGTCCATCATAAGTTGGCTCAGTTTTATCATTAAGCATAAACTCCATAGAAAACCTCAGTTTAGCTTTCCTGTTTTCCATGAAACAAAGATAATGGCATCTCAGCTAGAATGAAAAATCTGCCATAAAGTTTTTTTCATAGGTTCCTCAGCTTGCCGTTGAATACTCAAATTAACCGCATTGCAAGAACCCAGATTTTATTTCTTCTGCTTACAGTATATCTTGCAACATCAATTTCTCCTTCTAGACAAAATTCAATGAAGAATAAAAGGTTGTATCTGAAGCTGGAAACACTATTTAGTAAATGTTCACTTGGAATACCAGAAATCCTTCTTACTCTATCCAGGAATATTTACAGCATATAATTCTACCCTCTTGGTCCTGAATGTGTACCATCTCTCCAAGCACTCTTGAATACCACCTAAGAGCAGGACTTCAGAAAGTGACTCCTCAAGGAATGCAAAGTCCTACTGACAGGCAGCATAGACAAGCAACCAGCAGAGAAAGATGCTAGTATCCTTACCTCCCAAGTTTTGTATTGATGCAGCCCCTGACAATATTGTTCCTCTGCCCAAATACCTTCAGATACTGGGATCATCTGTGGCTTAGGTCAGTGTCACACATTTGGCTAGCTGATAAACAGAGGACAAGCAGCTCTAGCACAGCAAAGTATGTAGCAGAGGGCAGCAGTAGCAGCTTCAGACTCAGCTTGGGAGTGGTATTTTTCCTGGACAGTTTGAGGGTATGAATGTCTATGTATGTGATTTTACACTGGAACAGAATAGAAGTCTTGAAAGAATGAAGCTGAGCATTGCCAATTCTCCCAGTCCCAGTTGAGGGGAATGAAGAGGACAACAAGAGAAGACAATGAGTATCACCACCTTTTTGCTCACTCAGGGGCCTACCACCTTCCAGCTTCAATCTGTGCTGAACTGGACACAGATGTGTGAAGAAGCATTGCTGAATTATGAACAAGAACAAATAATGCCAGTGCCTTTACAAAACTGGTTTCTGGAAATAGATAGTAAGCTTCTAGTTCAGTCCTGAATCTACAACATTGTGGAAGACACAACTAAAGAACTTGCTGGCCAGTTTTCCATATAGCGAAATGGTTGACATTATATTGTTTAATTACCGGAAAGAAAACAGAGAAGGCCTATTATGTTGAGAAATAGTTTCCAACTGATCTAACACGCATTTAAAGCTTTTACTGACCTTGTATCACCTATCTGGCCTCCTTTGGTTAAAATCTACCAGAGAACAGGGAAATAGATGTGATATTTTAATGAGCGCATCACGTGATTATATCTGTTTATAACTCAATTTGGCATGTTAGGAGATCATTTCTGTACAAAAGCAACAACAGATGGTTGCTATGTTAGTATAAACACATTCCTCCGTTCTGTCTTCATGCTGCCACAATACTTTGGACTAGGATGTTATGAGAAGTTGTCATGAGAAGTTTAGTCTACCCGGGCTTTGTTTGGCATGAGGATGTTCCAGTAAATCTTTGTATTCAATTTTTAGAATGTGGGCCTTAATTCTTTTACATTTTTATTTTTTTTCCTCAAG
Seq C2 exon
CTATCAATCCATGCTTTACAAAAGTCTGCGATCCTAATGCCAACTGCACTTACCTTGGACCAAATCGTCACAAATGTACCTGTCGAGAAGGTTACAGAGGGGATGGTCAAGTCTGCTTACCTATAGACCCTTGCCAAGCACTATATGGGAATTGCCCTGCACAGTCTACCATTTGCATATATGACGGCCCAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012751:ENSGALT00000020806:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129472=EGF_3=WD(100=83.7)
A:
NA
C2:
PF129472=EGF_3=WD(100=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATAGCTGAATGCAAGGCCTTG
R:
TCCTGGGCCGTCATATATGCA
Band lengths:
318-2264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]