GgaINT0120547 @ galGal4
Intron Retention
Description
NA
Coordinates
chr1:77917404-77919939:-
Coord C1 exon
chr1:77919827-77919939
Coord A exon
chr1:77919507-77919826
Coord C2 exon
chr1:77917404-77919506
Length
320 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
CCTGTCTTTTAATTTTTTAGGAC
3' ss Score
12.25
Exon sequences
Seq C1 exon
GTCTCTCTGCCATATGATTCACAGTTTTATTGGGTTGGATTATCATACATATCTGAAAGGAATGGCTGGTTCTGGGAGGATGGAACAGCTCTTTCAACTGAAGCCAAAACTTG
Seq A exon
GTAAGACTTCATAACCAGTGTGGTTCTGTCTTACGGGCCCCAATAACATGCAAGAAACTTACAATTACTCTTACTTTCCCATGTTTGCCACAAGTGCAGTCATGAAGGAGCATGGAGATGATCATATCTGCTATAGGGCTATCAACAGTGAGTAGCAAACAACAGCTCAGTCACTGGCTCTGGACCCAAAAGGCACTAATAAAATAGCTTCAGGGGGGAAATAACTACATTCCAGTGGCAAATCAGTATGATAACAAATTCAAACACAGAGCACATAATATCACTGGGGTGTTATTAATTCCTGTCTTTTAATTTTTTAG
Seq C2 exon
GACTGTATTACGCGAGCACACCTTCTGTGCCTCCTTATATGGACAGATTATTTATGCCAGTAACTCCTGTTCGACAAAGCAATCCTGGATCTGTGAGAAAGGAGCTGTCCAATTTGCCTGAAGAAGCACTGTGAGAAGGAATGTGGGCTGTCTGACTGTTAGATACCATTTCTAGGAACTGGGTGTTTTAAATGTAGTTTTATTTTTGTTTGTTTATCACGCAGCTTTCTCAGAATGTTAATTCAAATAGGCAGGTCAATAGAGACTAAAACTTCCTCTTTGCCTGCACCTAGGCTCATAAATGAAAGAAAAATACTACAAAGCTAAAAGCTACAAGCCTAGGAAGCAAGTTTAAAGGGTTAGCAACAGTCAAGTAATAATTCTTACATGAATCTCTAGAAGGAAAACCACACATTCTCACAGAGCCATATATTTCTTGTGCTTCTGTTAGAATTTCTCCTTTCCTCAGCATTCTACAGCTGTCAGTCATAGACCACTCCATCTACATCCTTGATGATTTTACCCACTGAATTACTGTACACACTAACTACATAACCCTGTTATAGATTAGTTTGCCTAGTTACGCCCTTGTTCTTAAATCTGTTCTTCCCTTCTTTGAAGTATAGAAATACAGAATGAACACAAGGTTCTATGTACCAATAAAACTCTTTTTTCATATGCATCAATATCTATAGAAACAAAAGGACATTTTTAGAAGAGTAAAGGAAGTCTCTGAAAGAAATCTCTTTGAAAATTAGAGTCAAATATCATGTGCAGATTAAAATATTACCTAAATAAAACTTCAGTGCTATAATAAATGTAATTGCTATGCAAGTAGTAGTAAGGATAACAATGACATGCTTTATTCACAGATAATCTTAATGAGTACTCAAGCTGATGCAGCATCTGTTGCCACAAATCTTTACTATGTTCTTGTGTTGTATCCACACTGTTTGGGATCTCTGGAGCCCAAGACACATAGTATGTGTAATATACAATTAAAGTGTCTGTCACACTTCCTGGAATGAAACAATGCCTCTAGATTTCTGGGTGGAGTTTCATGGCATGAGTTCTTTGAAGTTTGTGTGTGGAAATAATAGACAGATGTTTTATATCACACATGAAACATTCCTTAGGTGTAAATGTATGTATATATATATGCAATAGTACTTGGAGACCTTCCTGAAAATAAATTACATACAATTCTGTGCCTTTAATAATCATAATTTTCTTGACAATGATCTCAAAGACTGAAGCAGTTCCTTCAAACAAAGAAACAAAGAAACAGTAAAACCAACCCTCTACCTATTGTGCTGAAAGATGTTTATGAACTGAATTAATTCACAGTACTCAGCAGGGCCAAGTCCTAATATATGGATACTGGAGGTTTTCAGAACAATCCTGTTCTGTGATTCTGTTCTATGAGCTACCAGCTGAGCTATCTAGAATTCATTGCTATTGCAATAGAATGTGCATATCTCAAAGTAGGGTACAATATTTCATCCATTCAAAGGTTTCAGCCCCTTCAACTTGAAAGAAAAAATTCACAGGTAGCAGCTAAGCTGCCAAGTTTTGCCCCATTTTCTTTTAAAAAAACTAACATACAACTTGTTTTGTTTGTTGGTTGGTGTGCTTTCTTAGCAATCTGTTGTGTGAACTTGTTTGATAGCTGCACTGTGAAGTGTTAGGCCTCAGCTTTCCTGTTAACTGCTTGTGAAGCTTTTAAGAGTGCATTCATTATTAATTCAGGGAATTTATGAATGAGTTCTCAGATGCTGAATATGAATGCAGAGGGAGAAGACAGATACTCTCCTTTAAATCACCTGTCACAAAGGCCATCCAGACACCAACTGCCTCTGAATATCAGTGAAGGTGTGACTGACACTTGCTCTTTGAAATTCCTGTGCCATGGTATTCAATGGCAATAGAAATGGTGTTTCCCATCTAGTTCAGTAAATGAGAAAAATATGTAATTATAGGATTAATGTTTATTTCTGTGCACTATTTATTGGTGGTTTTTTTTTTTATTTGTTTGTTTTCTTCCTGATAAGAATAAGCATGCAAGAATGTGAAAATAAAGTGTTGCCCTAAATTTCTGTAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014722:ENSGALT00000043829:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.009 A=NA C2=0.071
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=FE(55.4=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(33.3=80.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGGCTGGTTCTGGGAGGAT
R:
GGTGCAGGCAAAGAGGAAGTT
Band lengths:
343-663
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]