GgaINT0087441 @ galGal3
Intron Retention
Gene
ENSGALG00000010448 | LTBP1
Description
NA
Coordinates
chr3:32437172-32439390:-
Coord C1 exon
chr3:32439157-32439390
Coord A exon
chr3:32437201-32439156
Coord C2 exon
chr3:32437172-32437200
Length
1956 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TTTCTTTCTTTTCTTTCTGGTTT
3' ss Score
2.84
Exon sequences
Seq C1 exon
CTGCTTTTAAGGAAATCTGCCCTGGTGGAATGGGTTATACGGTTTCTGGCCCTCACAGAAACAAGCTATATCATCACCCTGCAGTTAGAGTACAGCCACCTGTCATTGGCAAGACCCCGATTACTCAACCTGTTGCTAAAGGTACTTCTCCTCCACCTCTCCCAGCAAAGGAAGAGCCGGTGGAGGCACTGACCTTCTCACAGAAAAGTGAGCCTGACATGGCTGTGCAAGAAG
Seq A exon
GTGAGAGTGGGAAAATTCAGTCTTTCTATTTTTCTGTGCATGTGTCTTCAGTGGTATGTTTCTTTGCACAGTAGCTGTGTACAACACAGGACAAAGGAGTCACTTCCCAAGGCAGATCATTCCTTGTAATAGATGATCTGTGTTACGTGATGGATTTCTGGAGTTATGTATAGCTCCCAGCATATGCTGAGGACACTATGGAAAGAGAGAAATTGCTTTAGTCTGATGAGCGTTTATTATAAGAAATAGCATATGTATGATGTATAAAGATGTTTATCATCTCTGAAATATAACAAAGGACTCAGCTCAGGCTTTGATTTGCTAATATTTGGGTGGCAGGGTGAAGGGCTCATCAGTATCTCCTGTAGGATAGCACCACCTGTTGTGGGCATGCCTTGACAGCCCATGGTCACGAATCAGCCCCCCTCAGCTGCGCACTCCCTCAGCCACACCACCTTGGGCTGTTTAATGGTCAGCTGATTCCCTTGCTGTATTTCTTGCAGACTCTTTGTGATTTTCTACAAGCTCTGCTAAGAACTTCTAGCAGCTGCAATTGCCCCGAGTTTAAATCAAAGACAGAAACGAAGAAATGGAGGAAGCAGCACTGTTGCAAATACATAGCCAGCAAATTTGGCATGGTCTAATTGTAGGCAAGCAGAAATACATTCCTGAAAAACCTTCTGCTGATACAGAGTGCATAATAATTTATTTCCAAGCAGTAGCTTCTTATCTGTATGTCTGGCCATTACTAGAGTTTCATTCAGTTGGCTTCGCAGAGTTCTATGCAAGAGGAGTTACTTTCCTGTTAGAATTTTAACAGGATTCCAAAACCAGGATGCTCCTGGTTTTGCTTTTGGGGAAAAAAAATGGAACTAAGCTGAATCTGGTGAGAAAATAAATCATCCAAATATGGTCTGTGCAGGATTGTATAATCTCAGATGTGCCTTTGGGCCTTTCTCTGTTAAAAAGCACTATATTATTTCCACAAAGATTAATTTAGTGATGAGAAGGATTGCCATGTTCTGGTAAACCATAAAACACAGAATCTGACGAGAAGTGTTAGTTTTAAAAATAATTTAAAGAGTAAAAGCCCAAAACCACCTTCACAAATGCTTGTCGTAAGTCAGCAATGGCACGCATAAATGGTTCAGTTTCATATTCCGTTTTGGGATATGTTCAGTTTTTGAATTTTGGAAATTTTATTAGCAGGTCTCCCAGGTCTGCTCATCAGCCTCCCCTGCTAATACTGAAGAAAATGAAGTGCAAAGAGAAATGTTTTGTTTTTTTCTCCTATGAAAAATGTTGATTTTTCAAATGAAAAACATTCCTAAAAGGTCTTATAGAGACAAATAGATTTTCATCAATAAAAGGTGAATTAAAAAAAAAAAAGGCAAACTGCAGTGGAAAATGAAAAGTTGCATGGCATTTCTACCCCGCTTTCCTAAAAACAAAGTAATTTTTGTGTGAGAAACCAGACAAAAATACTTTCGCTTACATTAAAAAAAATCTACTTTAAAACATTTTTCTTTAACAATAAATTCATTAAAAAATGTTACTGATTATTTACATGTTATTATGATAATGGTATTGATTAACCTTTGAATAATTACAGGTGTTGACATTCCTTAAGGAATTTTAAGTGTTTAGTCAGTGAGTAAATAGCAAATGAGTTTCTTGAATTGTTTCAAAGAAAAGATGGAAACCTGTAAGAAGGCTGAATGTCACATAAATAATTATAAGCATTGGTTGGTGCCCAGAATCTGTTATGGTTGCAGGTCAGCTTTTCCATTTGTTTTAGGAACACTACTTCAGGCTTTCACAATTTGGAATAAGGGATAGAGTCTGAAAGCTTTCTGTAATGGTGACAACCATCTTCAGATATGATAGTAGTTTAAAATTGAATGTGTAAGTTAGCGTTATGTGAAGATTGATTAATTTTCTTTCTTTTCTTTCTGG
Seq C2 exon
TTTTAGTGGCAACTGCAGCCCCTGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010448:ENSGALT00000017012:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.506 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0068312=TB=PD(11.9=6.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTTTTAAGGAAATCTGCCCTG
R:
CTGATCAGGGGCTGCAGTTG
Band lengths:
262-2218
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]