BtaEX0008971 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000008028 | CHN1
Description
Bos taurus chimerin (chimaerin) 1 (CHN1), transcript variant 2, mRNA. [Source:RefSeq mRNA;Acc:NM_001113247]
Coordinates
chr2:21997341-22058626:+
Coord C1 exon
chr2:21997341-21997629
Coord A exon
chr2:22033603-22033680
Coord C2 exon
chr2:22058542-22058626
Length
78 bp
Sequences
Splice sites
3' ss Seq
AACTCTTTGCTTATTCGCAGTTG
3' ss Score
6.76
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
Exon sequences
Seq C1 exon
ATTTGGAAGTCAAACCAGAAACTTCAGGCTCTACTACGATGGAAAGCACTTTGTTGGGGAGAAGCGCTTTGAGTCCATCCACGATCTGGTGACTGATGGATTGATTACTCTCTATATTGAAACCAAGGCAGCAGAATACATTGCCAAGATGACGATAAACCCAATTTATGAGCACATAGGATACACAACCTTAAACAGAGAGCCAGCATACCAAAAACATATGCCAGTCCTGAAAGAGACACTTGATGAGAAAGATTCTACAGGCCAGGATGGGGTGTCAGAGAAAAGG
Seq A exon
TTGACATCACTTGTTAGAAGAGCAACTCTGAAAGAAAACGAACAAATTCCAAAATATGAAAAGGTCCACAATTTCAAG
Seq C2 exon
GTCCACACATTCAGAGGGCCACACTGGTGTGAATACTGTGCCAACTTCATGTGGGGGCTCATTGCTCAGGGAGTGAAATGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008028-'11-20,'11-15,16-20
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.175 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0001719=SH2=PD(45.1=33.0),PF0231811=FYVE_2=PU(10.7=12.4)
A:
PF0231811=FYVE_2=FE(22.3=100),PF0013017=C1_1=PU(5.7=11.5)
C2:
PF0231811=FYVE_2=FE(25.0=100),PF0013017=C1_1=FE(52.8=100)
Main Skipping Isoform:
ENSBTAT00000010556fB1710
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAGAGCCAGCATACCAAA
R:
GCACATTTCACTCCCTGAGCA
Band lengths:
178-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development