Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGATTCTTTACCTGGACCTGTTGTCATGGATGCTTCAACCGAAATTTCTGACATGCACATACCCTCGCCTTTGTCAAATCGAATTCCAAGATTAGAAGgtatgtgcttattcagtgtcattgaatggtctcgtctgcgaaacatctgatttgattaatttgcattttacaaggtcatgaattacctgtttatggaattgggtattaattgtttgtagatatttttgaatttttttatcag

Basic information

species Physcomitrella patens
transcript PP1S249_84V6.1
intron # 3
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|162165175|gb|FC341157.1|FC341157
EST:     TGACATGCACATACCCTCGCCTTTGTCAAATCGAATTCCAAGATTAGAAG                         GTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC
genomic: TGACATGCACATACCCTCGCCTTTGTCAAATCGAATTCCAAGATTAGAAGgtatgtgctt ... tttttatcagGTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC
EST: gi|37824451|gb|BJ582517.1|BJ582517
EST:     TGACATGCACATACCCTCGCCTTTGTCAAATCGAATTCCAAGATTAGAAG                         GTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC
genomic: TGACATGCACATACCCTCGCCTTTGTCAAATCGAATTCCAAGATTAGAAGgtatgtgctt ... tttttatcagGTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC
EST: gi|162165161|gb|FC341156.1|FC341156
EST:     TGACATGCACATACCCTCGCCTTTGTCAAATCGAATTCCAAGATTAGAAG                         GTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC
genomic: TGACATGCACATACCCTCGCCTTTGTCAAATCGAATTCCAAGATTAGAAGgtatgtgctt ... tttttatcagGTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC
EST: gi|208362428|gb|DC943711.1|DC943711
EST:     TGACATGCACATACCCTCGCCTTTGTCAAATCGAATTCCAAGATTAGAAG                         NTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC
genomic: TGACATGCACATACCCTCGCCTTTGTCAAATCGAATTCCAAGATTAGAAGgtatgtgctt ... tttttatcagGTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC
EST: gi|208389330|gb|DC953168.1|DC953168
EST:     TGACATGCACATACCCTCGCC-TTGTC-AATCGAATTCCAAGATTAGAAG                         GTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC
genomic: TGACATGCACATACCCTCGCCTTTGTCAAATCGAATTCCAAGATTAGAAGgtatgtgctt ... tttttatcagGTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC
EST: gi|208373061|gb|DC948826.1|DC948826
EST:     CAAGATTAGAAG                         GTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC
genomic: CAAGATTAGAAGgtatgtgctt ... tttttatcagGTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 11 (upstream exon), 25 (downstream exon)
Score: 2

GGTGATTCTTTACCTGGACCTGTTGTCATGGATGCTTCAACCGAAATTTCTGACATGCACATACCCTCGCCTTTGTCAAATCGAATTCCAAGATTAGAAGgtatgtgctt ... tttttatcagGTGCCTTAAGTATGGACAATGGGAGTAATCACTCTAGTGGAGAAATCAAGCCTGATGGTCTTTCTGGAGAATCTATGGAATTTAATGCTGATGGAGGCAG




<











<


<