DreINT0013911 @ danRer10
Intron Retention
Gene
ENSDARG00000099137 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr18:49007999-49009996:-
Coord C1 exon
chr18:49009835-49009996
Coord A exon
chr18:49008118-49009834
Coord C2 exon
chr18:49007999-49008117
Length
1717 bp
Sequences
Splice sites
5' ss Seq
AATTCTTAT
5' ss Score
-27.68
3' ss Seq
AGATGTGGATGAGTGTGAAGATG
3' ss Score
-7.56
Exon sequences
Seq C1 exon
GTCGATATGATTCCTATGGCAGCCTGAGTTCAGAAGAGTGTGGGATTGTCCGTGGCTGTGAGAATGGTCGCTGTATCCGAGTTGAGGAAGGTTACACATGTGACTGTTATGATGGATATCAGCTGGACATCACCACCATGACATGCATCGGTATCCCTCAAT
Seq A exon
TCTTATTTCCATGCTTTTCCCATTATGCCTTTCCAGATATTACCTTTCCTATAGTGAGTAATAAAAGCTGTTTGTGTTTGAAGCGTACAGCAAAGGTTTGATTAATGGAGTTATGGCCCTTTAGGAGAAAGAGGTGATTCTGAACTGCCTGGCAGGAGTTGTCAGTAAATGCGGTTTACTCCCTGACTTATCTCATGTGGGTTTGTGTGTAAAAAAGGCCGATCTATAGTCTTCAAAAGAAATGTTTTGTTCAGTGAGCAGTGAAATGTGTATTTCCAATAGATGAGTAGTTGTTTTTGAATTGACATGGTAAAACTGACACTGGTATCTTTGTTCATATCACTGCATTTACAGCTGCTGCAGTAGAGGTGAAATTCAGGTATGGCATTGGCTTCTAAACAATTACAACTGACTCAGCCAGCAGGCCAATAAGGGAAGAGTAGGATCATGTGACCAATCACAATATGGTCCAATTAGAGCAGAGCAGGGCCATCTAAACAATCACTGCACAGCAGAATGTATTGTGTCATCTGACAAATCAGAGCAGAGCAGGGCCATCTGACCAATCAGAACAGATTAGCCCATCTGACTAATTAGAGAAGATCAATGGCATCTGACAAATCACAGCACAGCAGGGGCAGTCTGACCAATCAAAACAGACTAGGCCATCTGACCAATCACTGCACAGCAGGGGTTGTCTGACAAATTAGAACAGCCTAGGCCATCTGACCCATCATAGCACAACAGGGCCATCTGACCAATCAGAACAGATCAGGCCATCTGACAAATCACAACACAGCAGGGACTGTCTGACAAATCAGAACAGACTATTCCATTTGACTAATCAGAGCAGATCAATGCCATCCAACCAATCACAGCACAGCAGGGGCCATCTGACCAATCAGAACAGACGAGGCCATCTGACCAATCACTACTCAGCAGGGACTGATTGAGAAATCACAACAGCTTAGGCCATCAGACTAATCAGAGCACAGCAAGCCCATCTGACCAATTAGAACAGACTAGGCCATTTAACCAATCAGAACAGACTAGGCCATCTGACTAATCAGAGCACAGCAGGGCCATCTGACCAATTAAAACAGACTAGGCCATCTGACCAATCAGAGCACAGCCTAGGCCATCTGACTAATCTGAGCAGATCAATGCCATCTGACCAATCACAGCACAGCAGGGGCCATCTGACCAATCAGGATGGACTGGGCATCTAACCAATCAGAACAGACTAGGTCATCAAACCAATCACAGCAGGGGCCATCTGACCATTCAAAACAAACTGGCCATTTGACCAGTTGCAGCACAGGAGGGCCATCTGACCAACCACAGCAAAGCAGGGGCTATCTGTCCAATCAGAACAGACCTTTTATCTGACCAATCAGAGCACAGCAGGGCATTCAAAAAGGAGCAGTATGACCAATCAATTCAGTCTCATTCACAGAGCTGATGCTGCAGATGATGTCATGAATTGAACTGCTTTTTAATCTGCAATAGATGTAAACCTGTTTGTAAAGCTAAAATAACTACATTTGAATATGCTAATAGGAGCACTTCAACCAATCACACGTGCTGTTGTATAGTTCAGCTTCAGCTCTCCTTGGTGAAAGCACTTACAGTGGTGTACGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCGTGTGTGTGTGACTGCAGATGTGGATGAGTGTGAAG
Seq C2 exon
ATGAAGACTCGCTGGACTGCATTAACGGCCGCTGTGTGAACACGGAGGGATCGTACAGGTGTGTGTGTCTCAGGGGTTTCATCCTGTCCCGCAGACCAAACCACTGCATCCCTGCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099137:ENSDART00000160702:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=54.5)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=87.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGATATGATTCCTATGGCAGCC
R:
AGGCAGGGATGCAGTGGTTT
Band lengths:
278-1995
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]