BtaINT0037024 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038139 | CERCAM
Description
Bos taurus cerebral endothelial cell adhesion molecule (CERCAM), mRNA. [Source:RefSeq mRNA;Acc:NM_001102035]
Coordinates
chr11:99020187-99021128:+
Coord C1 exon
chr11:99020187-99020304
Coord A exon
chr11:99020305-99020993
Coord C2 exon
chr11:99020994-99021128
Length
689 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
TGACATCCGCCTCCCCACAGTTT
3' ss Score
9.49
Exon sequences
Seq C1 exon
GTCCTACCCAGATGAAGAGGGCCCTAAGCACTGGACCAAAGAAAGGCATCAGTTCCTGATGGAGCTGAAACAGGAGGCGCTGACCTTTGCCAGGGACTGGGGGGCAGACTATATCCTG
Seq A exon
GTAAGAAAGCCTGGCCTACAATCGGGCTCCCCACAGGTGGTGGCACCTGTCTTTGACAGAAATCTGGGTGGAATTTAACCATCTGTAGCCTGGACCCTTCAGCTAGCAACCTGGATCAAAATCCAGATCAAGTATTGAACTGGGATCCCTTTGCTTGAGCTCAGACTCTGTACTAAGCCTGGATCCCTGAGACAGACAGAGCTCAAGGTGTACACTGAGACTCAATCCCAGAGTATAGCGTATAACTCAGTCTCAGAGTGTAGAGCCCAGAGTATTATCTGAGCCTAGTTCCCTGGACCAAAGATCAGGGTTGTTGTTGTTCAGTCTGCTAAGGCTAAGTCATGTCTGACTCTTTGCGACCCCATGGACTGCAGCACGCCAGGCTTCCCCTATTCAGAGGAGATCTGAGTAGGTCTTTGAATTTCCTTCCTAAGGCTTCAGATAAAGTTCTTAGATCAGCAACTCAGGCATAAAATCTCTGGAGCCAGTCCCTGAGCCAGTGCTCCAGACTAGATCCTTGGTCCAGAAACAGATCTTCTGGTTTATAGGTTAGATCTCTCTGAGGGAACCCCATTGGATTGTGGGAGTTATCCTGGGTCCCTGGATATCTGGAGGGATCCCACTCGGTGAATCCTTGGGATGCTGCTGCCCAGACAAGAATGAGGCCTGTGACATCCGCCTCCCCACAG
Seq C2 exon
TTTGCAGACACAGACAACATTCTGACCAACAACCAGACGCTGCGGCTTCTGATCGAGCCGGGGCTGCCCGTGGTGGCCCCGATGCTGGACTCTCAGACCTACTACTCCAATTTCTGGTGTGGAATCACCCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038139:ENSBTAT00000004595:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.225 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF137041=Glyco_tranf_2_4=FE(41.5=100)
A:
NA
C2:
PF137041=Glyco_tranf_2_4=PD(18.1=37.8)
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:
GTCCTACCCAGATGAAGAGGGC
R:
GTGATTCCACACCAGAAATTGGA
Band lengths:
246-935
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development