Skip to another splice site:
1  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACCGTCTCCACCTTCGCGAAGGCGTCGTCCTCCAGCTCCGTGCTTGGACGTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgccaattcctcggtgatgctgactcgtttacgtgattctaattgcatggtagtgttgctgctgtgagtcgatcttgtagtaatgcccgcttag...

Basic information

species Physcomitrella patens
transcript PP1S429_29V6.1
intron # 1
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|67574442|gb|BJ947266.1|BJ947266
EST:     GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTC                         GGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
genomic: GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgcc ... tcttgattagGGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
EST: gi|162195477|gb|FC370894.1|FC370894
EST:     GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTC                         GGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
genomic: GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgcc ... tcttgattagGGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
EST: gi|67573679|gb|BJ946503.1|BJ946503
EST:     GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTC                         GGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
genomic: GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgcc ... tcttgattagGGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
EST: gi|162239610|gb|FC416866.1|FC416866
EST:     GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTC                         GGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
genomic: GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgcc ... tcttgattagGGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
EST: gi|162222037|gb|FC398604.1|FC398604
EST:     GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTC                         GGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
genomic: GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgcc ... tcttgattagGGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
EST: gi|162169721|gb|FC345258.1|FC345258
EST:     GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTC                         GGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
genomic: GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgcc ... tcttgattagGGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
EST: gi|18356859|gb|BJ188918.1|BJ188918
EST:     GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTC                         GGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
genomic: GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgcc ... tcttgattagGGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
EST: gi|162216362|gb|FC392155.1|FC392155
EST:     GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTC                         GGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
genomic: GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgcc ... tcttgattagGGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
EST: gi|162171755|gb|FC348424.1|FC348424
EST:     GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTC                         GGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
genomic: GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgcc ... tcttgattagGGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
EST: gi|162211328|gb|FC387558.1|FC387558
EST:     GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTC                         GGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT
genomic: GTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgcc ... tcttgattagGGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAAT

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: 30 (upstream exon), 35 (downstream exon)
Score: 19

CACCGTCTCCACCTTCGCGAAGGCGTCGTCCTCCAGCTCCGTGCTTGGACGTGGCGCCCAGGCTGCCGCTCCCCTTCGCTCCGTTGCCTGTGCATCTCTCgtaagtcgcc ... tcttgattagGGAGGCAAATCCAGCTCTCTGTATGGCGCGCAAGTAATCAACGCACGCAATGCAGTGGCCCAGAAGGCCTCATCCACCAATAGGGAGGCTCTGATCCGCG




<











<


<