GgaINT0117853 @ galGal4
Intron Retention
Description
NA
Coordinates
chr1:75621177-75623508:+
Coord C1 exon
chr1:75621177-75621330
Coord A exon
chr1:75621331-75623305
Coord C2 exon
chr1:75623306-75623508
Length
1975 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
AAAGTTCTTCTCTTCCACATTTT
3' ss Score
-0.76
Exon sequences
Seq C1 exon
GATACAATGCTGGATAACGCCTTACGTTGTCTTAAGAATGTTACATTTGATGAGACCAGCCTTTATGTCAAGGCCTTGATGGCTTACGTATTCACACTGACGGAGGATGTGGAGATGAGACAGGAGCTCCTGGATAAGTTAGAGAAAGAAACTG
Seq A exon
GTAAGTTGTTGCCTTTCAAAGACTTTGGATTCACAGAATCACAGAATTTTCGGGATTGGAAGGGACCTCTGGAGATCATCTAGTCCAATCCCCCTGCTAATGCAGGTTTCCTTGAGTAGACTGCAGAGGAAAGAGTCTAAACAGGTTTTGAAAATCTCCAGGGAAGAAGACTCTGCAACCTCTCTGGTTACCTTGTTCCAGTGTTCTGTCAGCCTCAAAGTAAATAATTTTTTTCTCATGTTAATATGGAATTTCCTGTTTTCCAGTCTGTGCCTGTTGCCCCTTTGTCTTATCACTGGTCACCACTGAAAAAGACCTGGCCCCTTGCACTTGACACCTGCCCCTTAGATATTTATAAGCATTAATAAGATTCCTTCTCTGTCTTCTCTAGACAGGAGTAATGAGGACATTCAGTAACTTTGCCTTCTCAGTGTCCTCCATTACCAGGGCACCTACCTCATTCAGCAGTGGGCTCACATTTTCCCTAGTCTCCCTTTTGCTACTGAAATACTTAAGAAGCCCTTCTTGTTGTCCTTGACCTCTCTCACCAGATTTAATCCCAAGTGTGTCTTAGCCTTCCCTGTTGCATCCCTGCATATCCTGACAGTATTCCTATATTCCTCCCAAGTGGCCAAAGCCTTTTTGCACATTCTATATGTTTTCTTCTTTTATTTGAGATTTTCCATGAGCTCTTTGCTCATCCATGCAGGTTTCCTGTCATTTTTGCTAAATTTCTTACTCTTAGGTTTGCACCAATCTTAAGCTTGGAGGAACTGGTGCTTGAAAATGAACTAACTCTCTTGGGCTCCTTTATCTTCCAGTGCTCTAACCCATGGGATACCTCAAGTAGGTCCTTGAAGATGTCAAAGTTGACTATGCTGAAGTCCAGAGTTGCAATCCTACTTACTGCCTTATTACTTCCACACAAGATCCTGAACTCTACTATCAGCTTCAGCCAAGGCTGCCCCCATCTTTCATATTGCCAATCAGTCCTTTGTTTGCAAGAGCAAGGTCCAGCAACACATCTCTCTTTGTTGGCCCCTCCCCAACCTGTGTCAGAAAGTTATCTTCAACGCACTGCAGGAACCTCCTGGACAGTGTGTGCCTGGCAGTGTTGTTTTTTTCCCCAGTAAATATCTAGGTGACTGAAGTTCCCCATGAGAGCCAGTGCCTATGATTGTGAGACTACTTTCAGCTGCGTATAGAAAGCCTCACCAACTTCCTTCTCCAGATCAGGCAGCATAGTAAACATCCACAACAGTGTCTCCCATGGTAACCTACCCCTTAATTCTTACCCATTCTTACCCATGCATGAGAACATTCTAGTCATACAAGCAGTCCCACCACGTCTCCATGATCTCAGTGAGAATATGGCCCTGTGACAACACACAGATACTTAGTTCCTCCTATTTATTCCCAATGCTGTTCACATTGGTCCCTGGTTTCTTAAAGTCAACCCATGCATTCTCCACTTAGTGTCCGTAATGTGACCTACAGTTACAATCCAAGAGCTGATATCCTCACAGCATATCACTGAGGAAGCAGTGCCTGGATGCATAGTAATAACAAGTGTGGCTTCCTCATCAAAGGTTGGAATATGGCATATGAAATCTAGTTCATCTCAGTCACCACTAACAGGACATAGCTTTGAGTATACACACACAGCTGAATAAAACCAGGACTGCACTTTAAACAAAAAGCTTGTGTTCAGAATCTGTCAGTTCCTAGCAGAGCTGTTTCCTAGGAGAATGAGAATTTGGGGTCATATCTGCAGCCTGGATCTCTCTGTGCTTCCAAAGGAAGAATTGGACTCTACCATATTTTCAGAGAACAAAAACCACTGGAGAGATTGGCTTATGTATTCTGAGAAGTAGCGGGTGTTTCTGGTGTTGTAAGGGAAACTGTCACTCCTCCAGATATAGAAGGGCAGGATGAGCTAATGTTCATAGGGGTCTAAAGTTCTTCTCTTCCACAT
Seq C2 exon
TTTTTTTTCTCTATGCATCAGCAGAGCATCTGACATCAGATTCCAGTAGTGAAGAATCTTCTTCTATGATTGAGATAGTAGCCTATATCCTTCTGGCTCATGTTTCCAAACCAGACTTTGCTGTCAATGACAGTGCAGTCAGCAAGCTTGTGCACTGGCTCAGTAAACAAAGAAATGCTCTCGGGGGATTTGCTTCCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014252:ENSGALT00000023051:41
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:
PF076789=A2M_comp=FE(21.3=100)
A:
NA
C2:
PF076789=A2M_comp=FE(28.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAATGCTGGATAACGCCTTAC
R:
GCAAATCCCCCGAGAGCATTT
Band lengths:
344-2319
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]