DreINT0013913 @ danRer10
Intron Retention
Gene
ENSDARG00000099137 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr18:49050843-49053344:-
Coord C1 exon
chr18:49053276-49053344
Coord A exon
chr18:49050966-49053275
Coord C2 exon
chr18:49050843-49050965
Length
2310 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
TGTTTCCTCCCCTGGTGTAGATA
3' ss Score
8.07
Exon sequences
Seq C1 exon
GGAACAGTGTGAATGGTCAGGCCAGCTGCCCGAAAGGTTTCGACAGGGTTAACGGGACGCAGTGTGTGG
Seq A exon
GTAAGACACCATTATCTCTCACTATCTGTACTTTAACTTCTTCACCCAGAGGTCAGCCAAATACATTCGTCTCTGATGACGTTTTGATGTCTAGTTCTGTGTAAATGCTGAATCTGATGCAGACGCTTCTCAGCTTTGATCATTGCCTTCGTTCAGTTGCTGTTTCTGATGTTAAACGTGAACATTTAGTTGTATCTACAGGGGCAGATCATTGTGGAGGGGCTTTATCTCTATGATGTGCCTTAATCAATGGGGTAAACAAGTGAGATGGAGCTGTTGTTGTTTTGTTTATCTGTCAAGCTGACTGGACGACATTATCTACAGTAAATGCATAATATGGATGTGTTATGTGTGTGAGATAACAAAGATAGAATAGTTAAAAATTGATGATATTTTTTTTTTTTTTAATCAAGCATTTAAATCAATTTTTTTTAAATTATTATATTTTTTCCCATGCACCATTGCATGACTATAATTTATTGTATGGTTTTATTTGAATAATTTTATTTAATTGTATTTTATTTATATATTTTATTTTATTTCTGAGCAAGATATATGAATATCATTATTTTTTTCCCATGCACCATTGCATATTTAATTTTATGCATGGTCTTATTTCAATCATTTTCATTTTATTTTATTTGATGTTATTTTATTTTATTTATGTGAATTTATGTGTATTTATGTTTCAAGATAAATGAAATTCAAGATTTTTTTAATTATAATTTTTTTCCATGCATCATGGCATGACTATAAGTCTATGTAAAGTATTATTTTAATCACGTTTTTTAATAATTTATTTTATTTTATTTTATTTTATTTTTGAGCATGATATCTGAAATTCAAGATTTTTTTTTAATTTGCATTATTTTTTCCCATGCACCATTGCATGACTATAATTTAATGCATTGTTTTATCTCTATAATTTTATTTCATTTTATTTATTTATTTATTTTATTTTTTATTTTATCTTATTTAATTTTATTTGATTTTATTTTAACAAGATAAATGTAAATCAAGATTTATTATTATATTTTTTTCCTTGCATCATAAAATGGCTATACGTTTATATTATTATTTCAATCATGTTTTGCTATTTTTGATTTTATTTTATTTAAGTTTAGTTTAGTTTATTTTATTTAAGATTATTTATTTTAGTATGTTTTAGTTTTTATTTTATTTTGTTGTTTTACGAAAGAAAACTAAATGAAAATGTAAACCAATATATTTTTTTAAATATCCTAATTTTGTTTTATTCCCATGCACATAATGACTATAATTTTAATTGTTTGATTTTATTTAAAAATATTTTTTTCCATACATCATGGAATCACTATAAGTTTATATTATTATTTTAATCATGTTTCATTAAATTTTAGTTTATTTTAGTTTGTAAGTTTATTTTATTTAAAAATCTTTATTTCATTTAGTTTTTTATTTAACATGCCTAATAGTACCTTTATTTTAATACCTGCTATTACAATGCTATTATTTCACTCGATGCTTAATTTTTAAAGCACACGCCGACAACCTCGTCCAGCTGACAGAGCTGTTAAACCCAAATAGTCTCACATGGTAGTAATTATGACCAAATGAATCTTTCCCAATTTGTCAATATCCGTGAAACCCAGAGAGTTTCTTCCCTGGAGGAGAATCTGCAGCTAATCTTCATGCTGAGCGTAACGGCAGAGCAGATGGTTTGATAAACACACTGTAAAATCAATTTATCAACACATAGCTGGAGCTGCTCACAGGGTCAAATAATCACAACTCCAGATCCGTTACGTATCCTTTTCTCTATTTCTGCCGCCTGCTGCTTCAAACCACATCACTTCTGTCATTACAAAACAACAATGCTCAGTGGGTTCACTACATTTGGAGATATCATGAGGAATCAATTTCACTGCATTACAAAAACATATTGTAACTTTGGGGCGGCATGGTGGCTCAGTGGTTAGCACTGTGGCTGGGTCAGTTGGCATTTCTGTGTAGAGTTTGCATATTCTCCATGTGTTGGCGTGGGTTTCCTGCAGGTGCTCTGGTTTCCCCCACAGTCCAAACACATGCGCTATAGGGGAATTGATGAACTAACTTGTGCATAGTGTATGTGTGTGTGTGTGAGAGTGTGTATGGCTGTTTCCCAGTACTGGGTTGCAGCTGGAAGGGCATCTGCTGCATTAAACATATGCTGGAATAGTTGGCGGTTCATTCCTCTGTGGATATATTGTCTATATATATTATATATCGGGTGGGCAATGCTGCGGCGTCTGTCAGGTTATGACAGTCATCATGTTTCCTCCCCTGGTGTAG
Seq C2 exon
ATATTAACGAGTGTTTGCAGCCGGGTTTCTGTGAAAACGGGAACTGTGTAAACACCCGAGGAAGCTACAGTTGTGTCTGCAATGAGGGATTCTTGCTGGACGCCTCTCATGGGATCTGCATCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099137:ENSDART00000160702:5
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:
PF0068312=TB=PD(5.1=8.3),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]