GgaINT0081155 @ galGal4
Intron Retention
Description
NA
Coordinates
chr3:106318683-106320344:+
Coord C1 exon
chr3:106318683-106318872
Coord A exon
chr3:106318873-106320096
Coord C2 exon
chr3:106320097-106320344
Length
1224 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
TTTTTTTGTCTCTTTATAAGGCC
3' ss Score
7.6
Exon sequences
Seq C1 exon
AGTGTGGCCTCCGACCATCTTTCGAGTCCTTTCTGTGGACTGGCAAGAGGATCACGAGTGGGAAATATGCCAAGGCTGGAGAGTTCCCATGGCAAGTGAGCATCCAGAGCAATGGGAGACACATCTGTGGAGGCAGCATAATCAGTGCGTTGTGGATCCTGACTGCGGCCCATTGCTTTGCAGATGGAGT
Seq A exon
GTGAGTACTTCTTTGCCCGGAGGAGGGCTGCAAGGTTAGCAAAAGGGCTGGAGGGTAGAGGCTTAGAGGAGAGGGTTAGGACATACAGGTTGTCTGGTTTGGAGTAGAGGAGGCTGCGATGAGACCTTGCTGATCTCTTCAACTTCCTGAGGAGGGGAATTGGGGAGGGAGATGCTGGTCCATAATGTGCTTCAACTTTTTGTTGGTCCTGAAGAAGTCAGACAGTTGAACTAGATGATTGTAGGTCACTTACAATTCAACTATTGTGTTGTACTGTACTGTATTGCTCTATCTTATCCTATCCCATGCTATTCTATCCTATCCTTTCTACTCTATTCTGTTCTCTCTGCTCTACTTGGGGTAAAAAAGAACTGCGCAGGCATGATGGAATGATAGCACTGCTCTTCAGGGTGTAGGATATGTATGTCCTTGGGATCACGTGCAAAATATACGTGATGGAGCCAGAAAGAGAGCCCTGAGAGTTTTTCCTTCTTTGGGGGAAATAAAAGATCACAGGTGGCATTACAACAGGAATTTGCAAAAATCCTGATAACCAGAAGATCTAGAAGGCAATGTGGAAGGATGGTGTGAGCGTCCTTCTGTAAATGGTCATGATGTTGTTCTGCTGACCCCCCAAACTGTTTCTGTACATTAGCACATGCTGTGGTACCTTGTAAAAAGAGGTATACTCCACTCCAATTTATCCTAAGCCCCAAATTGCATTGGTGTCATATAGCAAACACCTTTACCTTATGGGTAGTCTGACATTAATCCAGCAGTTTCTGGATAAATCAACCCATGCAATGCCCAATGGAGCAGAGTCCAGCCCTCCAAACTAAGGCAGGTCCAAGAGCCAGGACTGTTCAGTGACAAATGACCTGTGGAACTACAGTCTGGAGCAATTGACAAGGGACAGTGTGGTCATGGAGCAGCCAGCCCTGGGCACAGCTATCCTAAACACCTAGCTTTTTCCATCTGTTCATTATCTGGGCTATTTAGAACTTGCTTGCGTTCACTTTCTAACTCTTCTTCCGCTTCACCTGAAAATTAACTTTGCGTGGAAGTGAGGGCTTATTTCTGTGATATTTGTAGCTAAGCCACCCCTGCTATTTGCAGAGCACCACCCTACCCTGCCCAGGGAAAGGAGGCACCAACCTTTATAACACAAAGCCTTTCCATTTGCTCATGCATATACTATTTTTTTTTTTTTTGTCTCTTTATAAG
Seq C2 exon
GCCACCAGATATTAAGATTGTAATGGGAGCAGTTGACCTTGACTTCCCACTGGAAGTACGTGAACCAAGCAGCTTGATCCTTCATGAAGGCTTTAACAGAATAACCTTGAAGCATGATATTGCTCTGATCATGCTCAACTATCCCATTGAATTCAGCGATGAGAAAATCCCCATCTGCTTTCCCTACATGGATGACATCAGTTCATGGCAACACTGCTGGGTTGCTGGATGGGGAATGATGGGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016642:ENSGALT00000026867:2
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:
PF0008921=Trypsin=PU(20.7=71.9)
A:
NA
C2:
PF0008921=Trypsin=FE(37.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCCATGGCAAGTGAGCATC
R:
CTGCACCCATCATTCCCCATC
Band lengths:
355-1579
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]