RnoINT0087587 @ rn6
Intron Retention
Gene
ENSRNOG00000020813 | Ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:RGD Symbol;Acc:62057]
Coordinates
chr1:221105458-221106213:+
Coord C1 exon
chr1:221105458-221105643
Coord A exon
chr1:221105644-221106196
Coord C2 exon
chr1:221106197-221106213
Length
553 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGG
5' ss Score
2.59
3' ss Seq
TGTTCCTTCTTCTCTTTTAGGAG
3' ss Score
12.87
Exon sequences
Seq C1 exon
CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACCCTCACCATCCAGGGTGAAAGTGATTTCTCCCTCTTCCTGCACCCTGATGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCAGCACTCGAGGACACAGAGGAAGAGAGAG
Seq A exon
GTCTGGCTTGATCCAAAGGCTCCAGATCTACAGATAAGACCCCTGGGCTAACTTCTTAAGGCAGTGGTTCTCACCCTGTGGGTCGGGCCCTCCTGGGGGGTCACATATCAGATATCCTGCCTATCAGATATTTACATTAAGATCCATAACAGTAACAAATTAGAGTTATGAAGTAGCGATTAGATAATTTTATGGCGGGGGGGGGCATCACCACAGCATGAGGAAGTGTAGTAAAGGCGGGAAGGTTGAGAACTACTGTTCTAACATTTAAATCCCTAGGCCGAACCACGGACACCCTCCTCCCCCAGGCCTTACCCTCTCACCCTCACCCTCTCACTATCTGACTTGGCCTATCACCTTCTAGGCTGGCACTGTACAATTCCCTGCCCTCTAGGCAATGGCTACTAAGCAAAAGTACCCTAATCTCAGGATCTAAGCTTTGACCCTTGACCCAAAGGCATGACTTTTGAACTCTCAGAGACCTACCCTAGCTATACACCTTGATCCTTGACCTCCCATTCTGACATAAATAATGTTCCTTCTTCTCTTTTAG
Seq C2 exon
GAGTGACCTTGGACCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020813:ENSRNOT00000028262:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.619 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0068312=TB=PD(11.9=7.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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]