GgaINT0044982 @ galGal3
Intron Retention
Description
NA
Coordinates
chr6:27562198-27564354:+
Coord C1 exon
chr6:27562198-27562572
Coord A exon
chr6:27562573-27564294
Coord C2 exon
chr6:27564295-27564354
Length
1722 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GTCTCTTTGTTTCAACATAGGAC
3' ss Score
8.97
Exon sequences
Seq C1 exon
GGTACAAGCAACCAGTGGGAAAATATCCCGAATTTCTCCAGCCAAAACAAGTCTGACCTCCTGCCCAGTGACAGCATGTGGCCATCAGCAAGCCAGCAGCCGTATGAAATAAGAAACGAGCTGTACAACCCTGAAGAACCGACACCTGACACAAAGTTTAGCACTGCCACTGCCCCAGCATTCGGCAGGCTCAACAATAGCAAGCAGAGCTTCGGCAGCCCTCGGCTGAGGCAGAATGAGGAGCTGAGCGCCGGTGCGCCCGACCTGCCCATGAGGTCACTGCAGCCCCACGAGCTGAACGACCTCCATGGCGTGGCTCCCCTCCACTTCCCCCACGTCTGCTCCCTCTGCGACAAGAAGATCTTTGATCTAAAG
Seq A exon
GTGAGTGATTTTAACGTGCTCACCAGCACCCGTGGCGTTCAGAGGGGTTTCCCTGTCCGTCTGTCAGGTGATTTATCTGTCTGCCTGTTCTAGCGTAGCCGTGTCTGTCAGCCAGGTCAGCCTCTATCACAGAGAGAAACACAGAGTTTTGTAGGGCTTGGAGTAGCAGGACTGTAGTAGGGCAGGACTGTAAATCTGTTCAGTGGAAACTGCTGGGGTTTCAAGATCTGTTTTTGTTCTGCATTGCACTGTGAAAATGTTCCACATGTGTGTGTGCAGCAGTCAGCCGCTGGGAGGCTGTGGTCCTGGCGTGAGAAATGCCAGACCCAGGCATGCGTGGTTTCCATCTCTGATGGGTGTGAATCAGGGGGGAGGAGGAGCTTGAACCTTATCCCACCTCCTCCAGCCTGTATTGTAATTGCACATCTGCAGTTTCATTTGGCTGTCTCTGTTTCTGATCCCAAAGCCTTCCTGATAGAAGCTTTGTGCAAACTTGCTTGAACAAAATAGCACTTTTCCATAAAATGACTTTGCTAATTTCTTTGTTGGGATGTCCTCCACCTTCCAGTAACTTAAAGGACTCACTGTCCTAGTGGCTTTGGCCTGGAAGAAAGATGCTACCCAGCATAAGGGGTGCAGACTGGGCTCCCAGATCTTATCTGTTTGTGGGCCCTAAGGCTTTTTCTTGACCACACTCATATTGTCAAAAGAGCCCCAAATTCAAACTCAACCTTGAGCAGAAACTTGCCTGTTGTACAGAGAGCCTGTGTTGCTAGATCATGGTGAATATGTCAGCTCTGGAGAGAGCCACGTGTGTGCCTCTGAACCCCACTGCCATCCACGGGCCTTGCCTGGGGTCGTTCTGCCTGCTAGGTGAGCTCTGTCCCACAGGTCCTTGTGGCCTTTTCCATCACATTGCAGGACCAGCACCTCACTGCAAAGGCACGTGTTTTCATGCCAGTGGTGGCCTGACAAATATATTGCAACAGCATGAGTATACAAAGGAAGGTAGCCAGCAACTGAAATAGTACCTGATACATACATGCCTTGTGGCTTTGGGAGATTTGAATATATTTGTTCTTTCATGTTTCCCTTTTATTCTTTGAGCAGCTGCTTGCAAGAGGCTTTCCTATGGCTACTGCAGCTACAGAAGTGGTCTGAACTCACCCCCACCTAGGGCACGCTGGACATATGTGTTTTTCATTAAACATTTTAGAAGGGTGGTGTAGTTGTAATTACAGTGAGCTTCAGTTGGCTTGTTTATTAGTGTTTAATACACTGCCTTATTTGGTCCATAGATACGTAAATAGCTGAATGCACTTCTCTTACAAATGTGTTCATCTACTCAAATGGACGATCACTATCTTTGCTGCCATGTGTGATGAGCACCCTTGTTATGGACACTGCAGGAGCTGAGGATGCTCAGAGCTTTTAAAATGAGCTTTTCAAAATAAATTACCTGATTTAATAGAAATCAACATGTAGAATTTAAAACCTAATACAGAGAAGCTATCTGTGTGTTAAGTAACTGGTAACTGAGTCTACAAATAACAAATGAGTAAATGCTGTGGATAAAAGTACGCTTGGCTGCAGTATCATACAGTTAGATCTTCAGCATCTCAGTATTGGCTTTAGGATAAGGTAAACTGAACCGAGAAGCAATCTTTCAGCAATTTGTCTTAGGATTTTTCCTGTGCTCATCGTCTCTTTGTTTCAACATAG
Seq C2 exon
GACTGGGATCAGCACGTAAAGGGAACTCTTCACATCCAAAAATGTATGGCTTTTTCAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008693:ENSGALT00000014148:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.776 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF121713=zf-C2H2_jaz=PU(51.9=11.2)
A:
NA
C2:
PF121713=zf-C2H2_jaz=PD(40.7=55.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACAAGTCTGACCTCCTGCC
R:
TCCCTTTACGTGCTGATCCCA
Band lengths:
355-2077
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]