Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taagagcaacagagatgaaccatgattgttcgagggtcctgtgatgccattcccggaggatctgaccatctgcatctctgaccatgttgcttgcttgcagTGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCGAGATCGGAACCCACCTGGGGTGTGACTGCGAGTACATCAAGGCTTGCTT

Basic information

species Physcomitrella patens
transcript PP1S48_57V6.2
intron # 4
splice site 3'
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|208395513|gb|DC928928.1|DC928928
EST:     TCGCCGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGT                         TGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
genomic: TCGCCGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGTgtaagtccac ... ttgcttgcagTGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
EST: gi|37850989|gb|BJ608997.1|BJ608997
EST:     CGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGT                         TGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
genomic: CGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGTgtaagtccac ... ttgcttgcagTGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
EST: gi|100384943|gb|BY969678.1|BY969678
EST:     TCGCCGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGT                         TGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
genomic: TCGCCGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGTgtaagtccac ... ttgcttgcagTGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
EST: gi|18366577|gb|BJ198656.1|BJ198656
EST:     TCGCCGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGT                         TGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
genomic: TCGCCGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGTgtaagtccac ... ttgcttgcagTGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
EST: gi|37846958|gb|BJ604966.1|BJ604966
EST:     CGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGT                         TGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
genomic: CGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGTgtaagtccac ... ttgcttgcagTGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
EST: gi|19787903|gb|BQ040684.1|BQ040684
EST:     TCGCCGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGT                         TGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
genomic: TCGCCGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGTgtaagtccac ... ttgcttgcagTGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
EST: gi|18370166|gb|BJ201768.1|BJ201768
EST:     TCGCCGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGT                         TGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG
genomic: TCGCCGTCTACTCGCACCTCCCAGCGTACACCGAACTGATATACAACTGTgtaagtccac ... ttgcttgcagTGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccattcccggaggatctgaccatctgcatctctgaccatgttgcttgcttgcagTGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCGAGATCGGAACCCACCTGGGGTGTGACTGCGAGTACATCAAGGCTTGCTT
                              ctctgac  putative branch site (score: 3)
                                            cttgctt  putative PPT
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taagagcaacagagatgaaccatgattgttcgagggtcctgtgatgccattcccggaggatctgaccatctgcatctctgaccatgttgcttgcttgcagTGTGCCAAGCACCCGGCAAAGAATGCCTCCCTGGTGAGCAGGTTCGATGCGAGATCGGAACCCACCTGGGGTGTGACTGCGAGTACATCAAGGCTTGCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC