BtaINT0087951 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004757 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr18:50191935-50193415:+
Coord C1 exon
chr18:50191935-50192060
Coord A exon
chr18:50192061-50193268
Coord C2 exon
chr18:50193269-50193415
Length
1208 bp
Sequences
Splice sites
5' ss Seq
TGGGTACGG
5' ss Score
6.54
3' ss Seq
GTCTTGTCTCCTGCTGACAGATG
3' ss Score
9.46
Exon sequences
Seq C1 exon
ATGTGGACGAATGCCGGAACCGGTCCTTCTGTGGGGCCCACGCCGTGTGCCAGAACCTGCCTGGCTCCTTCCAGTGCCTCTGTGACCAGGGCTACGAGGGGGCGCGGGACGGGCGTCACTGCGTGG
Seq A exon
GTACGGGGCTCCTGGGGGAGGGTGGGGCCAAAGGGTGGGGAAGAGGCTGGTCAAACCCTGATCCTCTCCATAGATCTGAGTGCATGTAACCTTTAGAGGTATGGAATTTAGACCTTGGAATAGAAGATCATCTTCATGTCAGTCAGGAGTCCCTATTAACTCAGATTTTATTTGGGGTATGCTTTAAAAATTCATGCATAGGGAGTAGAAGTACCATAACCTTAAGTGTATGTAAACATTTTTTCCCCAAACATTTACAAAAAAATATTTGGCAGCACATGGGACCTTAGTTTCCCAACCAGGGACTGAAACCCTGTCCCCCACATTGGAATGCAGAGTCTTAACCACTGGGCCGCCAGGGAAGTCTGCCAACATTTTATGAGAAAATTTTCTAAACATATGGCAAGTTAAAAGGCCTGTAGAGTGAATCTCTGCACACCCATGACCTGCATTCTATTATCATTATACTTGTTTCCTCACATGTCTCTCCATTAATCCACCTAATTTTTTGGAGAGATTTAAAATTAAATTGCAGGCATCACTATATCACTCCCCAAAATTTTTCATGCATAATAATGCATATTATTAACCAGAGATCAATATGTGTTCACAGATATTTTTGAGGTTCATCTTACATACAGTGCAATGCATGATTCTTAATTATACATTCTCTTAGTTTTGACAAATATGAACACATCAGGCTTCATTTCTTTAAAGGGAATCAAAACTGTGAAGTTCAGGGAAATACTTGAACTTCGGGGATACGTGAATATAGGAATTGTAACGAGGCTAGCTGTCTCCCAGCTCTGCTATCCTCTATTGCATTTATTTTCAGGCAGATTCTCTTTTCACAACGACAAAAGGGGCCGTCGCACCTCTGGCTAACATCCTCAGCTTGCCATCCCTAGCTACAGAGGGAGGCTCTGAGTATTTCTAGAACAAGTCCCAGCACTGGCTTTGATTGGCCCAGCTGGGTCACTGCCTGTCTTTGACCCAGAGAAATGCATCAATCTGCTTGACCTACTCAAAACACATGGGTTGAAAAATGGAGAAGCAGAGGGCTCCCGTGGGGAAATCAGGGTTTGTCATTGGAACATAAGCAGAGGATGGGATCTGAGCCGTTAAAATGCTTGAAAGCTCAGACTTTGATGGAATTCCAGAAGTTTACCACCGTTGACTCCCTCTTCCGTCTTGTCTCCTGCTGACAG
Seq C2 exon
ATGTGAATGAATGTGAGACACTACAGGGCGTGTGTGGAGCTGCCCTGTGTGAGAATGTGGAAGGCTCCTTCCTCTGTGTCTGCCCCAACAGCCCTGAGGAGTTTGACCCTATGACCGGGCGCTGTGTTTCCCCTCGGACCTCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004757:ENSBTAT00000065855:24
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=0.080
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=84.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTGGACGAATGCCGGAAC
R:
CAGAGGTCCGAGGGGAAACA
Band lengths:
270-1478
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development