GgaINT0048303 @ galGal3
Intron Retention
Gene
ENSGALG00000012555 | CCDC148
Description
NA
Coordinates
chr7:37948641-37950788:-
Coord C1 exon
chr7:37950648-37950788
Coord A exon
chr7:37948883-37950647
Coord C2 exon
chr7:37948641-37948882
Length
1765 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
GCTGTGGTTTATTTTGACAGATC
3' ss Score
7.03
Exon sequences
Seq C1 exon
GTTTCTGTTGTAGCAAAACCAGACCCAGCGAGAGTGGTGGCTGACACTGCAGCATCTAAAGCTCGGATGGGCGTTGGGACCACAGAAGAGTTTGTTCTTCAAAAGCCACTGTTTCAATTGCAAACATATAGTGAAGAGCAG
Seq A exon
GTAATAGTCTGTCATTGTACTGTGTGATTTATTGTATGCAACCATACTGTGAGAGCAATACATGATAATGATTGCGTATCTAAAATAGTACTGTTAATGGCAGAACACAGAATATGATGTATGTAAAACTGAAAACCGTAGGAGCAATGGGTGGAGCCAGCTCTGTGCCCAGGAGTCCGCAGTGCTGCAGCACACAGCAGCGTGCACACAGACTCAGTGCCCCGGGGGCTGCGGTGCTGTCCCTGAGCCACATCTCCCACCAGTGGGGAGGATGTGGGAGCAGGTGGCTGCTGGGTGCCGACTGCTTGCTGAATGCTTTGCTATTGCTCTGTTTCAAAACACCCCTTTCACGCTTTTTCATGCTCACTTTAAAAAGTGCCTCCTATCCACCTGCTCCTGCTGGTGTTGTGCTAAGTATCTGAAGTGAAGTGGAAGCTGCCCTTACTGCGTGGAAAAGCAGTGCCACAGATAACTTCATGGTCCACTATTCTTTGCATTTTGGGATCTTATTACTCATCTCTTCATAAACTGAAAATTAGAGTCGTGACTACCTGCTTGCTGTTGCCGAACTGAAAATCAGATGGGATGTTGTATGTGAGGGCTAAAGGAGAAACCAGTCAGGTGTAAGCAGTGAAGTGGTTTTCAGGTTGCCCTCTCTGCTGAGGACAGTGCTAGCTCTGTTTCAACTGAAGTTAAGCAACAAAGGGAGGGATTTTCTGTTTCCTTTACTACTCTCCATCTGTCAGTGTATGCATTTGGAACTGAGAAGCTTTAAAATGTCTTAAAAAAGGAAGTGCTGGACAAGCATGGTAATAGACATCATTACATTTCAGCTTATTCAATGCTACAATAAAGCTTTTATGCCATGGAACTACGTGATAGCATTTTTCTTTCTGTCAGTATCATTTCCAAATTCCAGAATGGGAATGATTTCAAATGCAAGGGTTTTTGTTTGGCTAAGAAAATTTACCCAAATCCAAATGAATGTTGTGAGGTTTGGAAAAGTCTGTCTTGAGCACGCTCTGAGGAGGTGCACGTGAGGTTGATATGTGAGTTCTCAGAACGCTCTGCCCACTTTGGCTGGTCATGGGCACTGCTTCCTGCTCCTGCCAACACCCAGTGAGTGGCCAAGGGAGCTGAAAAGGACTTAAGGATTTTGTCATATACCTCATGGCAAATTTTAGTGTTAATTTCCCCGGGCCTTAGTTATTGTTATGGATATGGAAGTGGTACTGCCATGGAGACACTAAGCAATGCAATGAAAAAAATCGTCAATGCATTTGAAGTGCTCAGATCCCATAGAAAAAAAACAAAACAAAACAAAACAAAAAACCAACAGGAAGAATTAAAAGTTGTGTCCTGAAAGCAGGGTTGTGCTGACAGAGAACATCAGAGAAGTCAGAATCTCTTTCCTGGGCAGGCTGAGTTCAAGTTACTCAGCTTCTCATCTGCCCTTTGGATTTTGCTGAGGACTGAAAACCAGAGATCTTTGTTAACACAGATTGTGATCATTAGTGTTTAAAAAGGATGATACCAAAATATGTGTAGTGAGTTATTCACCACTGAACTTCTTCACTTCCAAAGGCTCCATGTTGTGACCATAACATTTTTAATCACCTTCTGATCCCTTTTGTTTCAAACATATATAACATAATGTATGTATCTGTACATACATTCACAAATAGCCTTTAGGTATATCTTTATTCGCAGTGTAAGTGAGGAAAGTGTGGTTTTGTTTCATCATTGCTGTGGTTTATTTTGACAG
Seq C2 exon
ATCATTTCTGACCCCAGGCTCCGTGTCGAGTTAGCTCTTCGAGAAGCTGGACTTCATAAAACACTTTATGCAAAAGAGATTTTACCCAAAATTCCTCCACTGAAGCTTCCAAGAAGAGATACGGAATCTACAGTGTTTAAAATGTAGACCGCTTTGTGTATCAAGAGCAGAGAAGCCTCAGGGGTGCAGTCTGGGCCATAACAGTGAACCTTCAATAAATTTCCCATCGCTTTGTCATGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012555:ENSGALT00000020503:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.149 A=NA C2=0.062
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTAGCAAAACCAGACCCAGC
R:
GGTTCACTGTTATGGCCCAGA
Band lengths:
343-2108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]