GgaINT0044556 @ galGal3
Intron Retention
Gene
ENSGALG00000003526 | Q5ZKY5_CHICK
Description
NA
Coordinates
chr6:10466969-10468798:-
Coord C1 exon
chr6:10468678-10468798
Coord A exon
chr6:10467113-10468677
Coord C2 exon
chr6:10466969-10467112
Length
1565 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TATGTACTATCCTCCAACAGGCT
3' ss Score
9
Exon sequences
Seq C1 exon
GTTTGCTGGTGCCTTCACACTGCGGCAGCGAATGCTGAATTTTGTGCAGAATATCCAGTATTACATGATGTTTGAAGTGATGGAGCCAACATGGCACATTCTCGAGAAGAACTTGAAATTG
Seq A exon
GTGAGTGTGTGTGCTTGAGAGAAGTCAGAACAGAAATCTTATGTTACCAAATGTAATGTAGGGAGAAGATGCCTTGTTTTAGTTACTGTTAAATGTTTTATTGGAGGAACTGTTCTCATCACACTACAAACAGTGCTGCTGTTCTGCATCACCTTTCTGCTTTGTTAGTCATGTATCCCTTTCCTCTATGGAACCCTCCAGTCTGTGCCCAACTTCCATGCTCTCTTCATCCTGTTATGGGAAAGCAACATTCTGCTGAACATCACCAAGAATAAAAAAGTATGGGTAAGGAAGAAGGATGTAAGGTGCAAAGATCACAAGCAGGTCCAGACATCTTCCTCTGATTCCTTGGCTGACTCACAGCTCTCTTAAAAGCTGCGTCAGTGCTTTCTCTTCCTTGGAGCTGCCAAATATTAGGTCTTTGAGGCAGGAAGAGGCCTTTGCACTTTATTTTTCATGCTAGGACTATTTGTAATAAAAAGGGTTTTTTCTCTTCGGATGGTTGTTCTTCTGGGCTATTTTCACTGCATTGGGCAAGGCTGGAGAACTTTTCCACCCTTGTGATGTCTGGGAGAGACTAAGCTCATTTCCAGCTGGTTTTTATGCCTGACAAAGAGGGTATCTGGGCAAAATATGCCTGACCTCTCCTTTCATGGACATACAGTGTCTGGGCTGAGATATTTTCTAAGTATGTAACGCAGTGTTCCTGGTTCATTGATCAAAATAAAGTCAGTGACTTCTCCAGAAGTTAACTCTTTGCCCTAGCACAAGCTCCAGGTAGCACTTTTTATCTCCTGATGGGCATATGAGATGCCTTTATCACCTCAGAGGGAAGCACATTCCCAGTGAGCGTCCTACCTCCCTGTTTTAAGCCACGAATGAGAAGACCCCAGAAGAATAGGAGCTGACATTCCAGAACACACTATTAAAGAAGCCTACAGAGGCCTTCTGAAATGTGATGACTCAGATTAGAAGGTTCCAGACAACAGAGAAAAAATCTGTTACTGGAAGACCAAGGATTTGTCTCTCTTAGATAAACACATCTTTCCTTTCCCTTTTTACCTGACTGCAGTAGTGGTCTGGACTTTTGAGTTACTGTTAGGCAAGTAAAATTCATTAGGCAAGTGAAGGATGATGCTTGATTACTGGCAGGTCTAGTGAAAGTTACAGCAACGCTGTGAATACATGTTATCTACCTTGCCATCAGCCTGGCCCAGCCTGCAGCTTTGTTGTTCCCCCAGAACATGTGTCAGAGCATTGGCTGGAATTACCTGGCCGTGGCCGGTTTCTGGCATACAAACAGCCTCTTTGGACAAGACTCTGTGGGAGGAAAATGTTAAAGAGGAAAAAAAGATGGCATCTTAGGTTGCTTTGGCACTGTTAACTAAAACAAGGGCAGAGACATAGGCTGCCTGCTCTGTGCTACATAGCAAATGGCTCCACTGTGTTCTGTGCGGTAATTTAGGCTTTCATCCTGGTGGGAGTTGAGCAGATACGTTGGCAGTGCTGGTCTAGAGCTTTGGTGTCCTGGTTTGGTTTTTCATTTATGTACTATCCTCCAACAG
Seq C2 exon
GCTTCTAATATTGATGATGTTCTGAGCCACCACACGAGCTTTCTGGACAACTGCCTGAAGGACTGCATGCTGACCAACCCCGAGCTGCTGAAGATCTTCTCCAAACTGATGTCTGTCTGTGTCATGTTCACAAACTGCATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003526:ENSGALT00000040987:14
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:
PF041308=Spc97_Spc98=FE(7.7=100)
A:
NA
C2:
PF041308=Spc97_Spc98=PD(4.2=45.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGCTGGTGCCTTCACACTG
R:
GCATGCAGTTTGTGAACATGACA
Band lengths:
262-1827
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]