RnoINT0013667 @ rn6
Intron Retention
Gene
ENSRNOG00000049385 | Adamtsl4
Description
ADAMTS-like 4 [Source:RGD Symbol;Acc:1561012]
Coordinates
chr2:197812317-197814808:-
Coord C1 exon
chr2:197814493-197814808
Coord A exon
chr2:197812529-197814492
Coord C2 exon
chr2:197812317-197812528
Length
1964 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TCCTTTGCTTCCACCCTTAGGTC
3' ss Score
11.97
Exon sequences
Seq C1 exon
CGGAGGCAGCTGGAGAGAGCGGGCGCAGAGAAGGTAGAGCCTCCCTGACCCCCGCCTGGGCTCTGACTGTCTTAGAACAGTAGACCCTGAGGCGAATTCCTGGGGAGGGGGTCTGGTCTCTGGGACTCCAGGTCCCATCACCCGGGCGAGGGCTTGCGCCAAGATTCCTATTAAGTCACATAGTGAAGTTGGAAAACATAACCGGGACCTCCCTACGCGCTGGCGCAGCCGGCTCTTCCCTGAGGGGCTTCGGGAGGATGCGCCCCGACGCCTGCACTCTGGGATCGCAGGGATAGTGTGTCCAGGAGGGATGCGG
Seq A exon
GTGAGTGAGCTTTGCACAGCTCAGCCTGTTGTGAGAGGTTGAGGGAAAGGACACCTGTTGGGATGGTTTGCAGGGTGGTGGTGGTGGAGATCCCGTGAAAACCCAGGCCTTCTGACAGGACAACATCTTTCCTCTGCTAGCCCAGCCCTTACTAACTCCATACTCCTCCCCCAACCCCGCATTGGCTCATTCCCCCCCCCCCCCAGGTGAACCTGGGGTGAAAAGGTTAGCTCCCTTCAGGTCACTTCCCTTGGTGTCACTGGCCCAGAGGGGGTGTGACCAGGAGCAACATAGGTTTGTATTCAGCCTAGGTCCACCCTGCTCATCTCCAACCTCAGGGNCCACCCTGCCCATCTCCGACCTCTGTCTTTCTCACCCTGGGCATGAAAACGGGACAACCAGCATACATTTGTGCTGGGAGGGGGTGTCAGCTCTTGCCCCCCCACCCCCCCTAGGGCGGGAGGGTGGGGTGGACTTTTCCAGAGGAGGGAGCCAGGCCTGGCCCAGCCCCAGGAGCTCTCGTCCTACTCCACCCCTCGCTCCCCCCTCCTCACTCCTCCTCAGAGAGCTGCCAAAACCAGCTCAGGACAGGATTATGTGTACTGGGTAGACCACGGAGAGGCAGCAGGGACAGACCTGGGGGAGAAGAGAGGAGCAGAGGGAGGTGGAGAGGGGACCCGCATCGGACAAGAGACAGGTTGTGTTCATCACCCCTTTTTTTCCTTCCGTCCAGCCTCCCAAGGCAGGCATAGGGCTGATGGGTGGGTCTCTTCCATCAGGGAAGTGGTGGACTCTGTGGCTGCCCAGCTAGGGGAAGAAGGAGAGGAGTGCATTTTACCTCCTCCACAGCCCCAAGAACTCAGCTCAGCCAATTGGATCCCCTCCTCAAATTCTCATGTCCTGGGGTCCCAGGGAGGGGGAGTGGAACCTAGCTGTGCCTCCTCTCTGACCTTTGCATGCCCTGAGCTGGCCTACTTTGGCCAGCAATCCTTGGATTCTTCTCATGGTGCCATTCAGATCCAGCAGAAACAGTGTTTTTCCTGGAAAGCAGAACTAAGATGGGGTGAGGGCTGTGAGTAGGCAGGGCCTCAGCGAGAAGGAAGGGGCTGGGGCTGGGGGTAGGGAGAGACATGGTTTGAGGACAGGTATAGAAGCCCCCCACTACCCAGTGTTTACAGCTAGACTTAAGGGTGGACTTTCCAGGTATACCTGAAGGAGAGCCTCAGACGCATGGGCTGCTATGAAGGCTGCATCTCTCCTTAGGTGCCCCAGCCATTTTGGCTGAGCATTGTAAGAGAAAAAAAAAAAAAGCAGAAAACTAGTACATGAGCTAAGTCACCCTGAGCCAATGCCTTGTGGATGCTGGCACCCATTGGGAGAATAAGTCACTGCCTCTTCTCAAGAGATGAAGCTATTAGCACTTAGTTTATCCCTTGGACAAAAAAAAAAAAAAAAAAAAAAAAAAAGCTGTATGACACTGTTCCTCCATAAGGAGCTTAGTTAAAAGGGGAAGAAAAGAAAGACTGGGGCGGGTAAGAGAGTAAGAGAGTAAGAGGGGTAAGAAACAAATGCTCTTGGGTTTTGTTAGGGGGAGGAGGTTGATTTTCAATTTTTTTAGCTAGAGGTCCCATGTCACTCAGGTTTGCCTTGAACTCCTGCTCCTCCTACTCCCCCCTCCCAAGTGTGGGATTATGGCTTGTGCCCCTACCCCTGGTACTAAGAGGCCTCTGGCTGGCCCCTCATGGGTGCCTGGCATAGCCTGTCTCCTCTAGGACCTGGAGTATTAGGAGAAAGAACCTCTAGGTCCAAGCTGCCTGCACACAGGCCCTCTTCCGGCTTCCAGAGGAGATAAGTCCATCTTGGGCCACAGGGAGGAGACTCAACTGAACTGAGAGGCTGAGGTCAGACCCCCACCCTCTCCTCAGCAGATGACAAAGACAAAGATCCTTTGCTTCCACCCTTAG
Seq C2 exon
GTCCTAAAGGGGTGGACCACTCCTCCCCCACCCCTCCAGACTGTGGGTGTTGTGCTGAGACAGCCCTTCAGTCCCCCAGATATCTGCAGGGGTAACACCATGCTCCTCCCTCCTCAGAGCACCCTCCATCCCTGATGCCAGAGTAGCTACCCTGTCCCTTCTCCCCAGCCCAGGGGCAGTCACAGGAAGAGCATGGAGCTTTGGCTGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049385:ENSRNOT00000074156:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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:
AACAGTAGACCCTGAGGCGAA
R:
GGAGGGAGGAGCATGGTGTTA
Band lengths:
354-2318
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]