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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcgaatttagagaaatggctttgcagcttagaaagtcgcgtgtcgtttaccttgggattgacttctgtcattgtgttgatatcgatgctcatgaaggaagCGAGAAAGGCAGCACAGAAAGGAATGGATGTGCAGAGGGTGGATGATAAAGTGAAAAAAGCTGTTGCACTCGCAAACCAGGCAGCCAATGCTGCACGTGT

Basic information

species Physcomitrella patens
transcript PP1S101_1V6.3
intron # 5
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|162255493|gb|FC431283.1|FC431283
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162255493|gb|FC431283.1|FC431283
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162255493|gb|FC431283.1|FC431283
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162255493|gb|FC431283.1|FC431283
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162255493|gb|FC431283.1|FC431283
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181177|gb|FC357310.1|FC357310
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181177|gb|FC357310.1|FC357310
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181177|gb|FC357310.1|FC357310
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181177|gb|FC357310.1|FC357310
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181177|gb|FC357310.1|FC357310
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162257862|gb|FC434060.1|FC434060
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162257862|gb|FC434060.1|FC434060
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162257862|gb|FC434060.1|FC434060
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162257862|gb|FC434060.1|FC434060
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162257862|gb|FC434060.1|FC434060
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181609|gb|FC357911.1|FC357911
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181609|gb|FC357911.1|FC357911
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181609|gb|FC357911.1|FC357911
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181609|gb|FC357911.1|FC357911
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181609|gb|FC357911.1|FC357911
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|37845500|gb|BJ603508.1|BJ603508
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|37845500|gb|BJ603508.1|BJ603508
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|37845500|gb|BJ603508.1|BJ603508
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|37845500|gb|BJ603508.1|BJ603508
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|37845500|gb|BJ603508.1|BJ603508
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162180334|gb|FC355339.1|FC355339
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162180334|gb|FC355339.1|FC355339
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162180334|gb|FC355339.1|FC355339
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162180334|gb|FC355339.1|FC355339
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162180334|gb|FC355339.1|FC355339
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162176368|gb|FC353553.1|FC353553
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162176368|gb|FC353553.1|FC353553
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162176368|gb|FC353553.1|FC353553
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162176368|gb|FC353553.1|FC353553
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162176368|gb|FC353553.1|FC353553
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181610|gb|FC357912.1|FC357912
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181610|gb|FC357912.1|FC357912
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181610|gb|FC357912.1|FC357912
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181610|gb|FC357912.1|FC357912
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162181610|gb|FC357912.1|FC357912
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162150914|gb|FC327394.1|FC327394
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162150914|gb|FC327394.1|FC327394
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162150914|gb|FC327394.1|FC327394
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162150914|gb|FC327394.1|FC327394
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162150914|gb|FC327394.1|FC327394
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162176086|gb|FC351061.1|FC351061
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162176086|gb|FC351061.1|FC351061
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162176086|gb|FC351061.1|FC351061
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162176086|gb|FC351061.1|FC351061
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162176086|gb|FC351061.1|FC351061
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|37836107|gb|BJ594115.1|BJ594115
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|37836107|gb|BJ594115.1|BJ594115
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|37836107|gb|BJ594115.1|BJ594115
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|37836107|gb|BJ594115.1|BJ594115
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|37836107|gb|BJ594115.1|BJ594115
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162150913|gb|FC327393.1|FC327393
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162150913|gb|FC327393.1|FC327393
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162150913|gb|FC327393.1|FC327393
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162150913|gb|FC327393.1|FC327393
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-
EST: gi|162150913|gb|FC327393.1|FC327393
EST:     CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAG                         G
genomic: CATCATCCGCAGTGGCCACCAATCACTTCAAAGTCTTGAATGCTGTTCAGgtattgctcc ... atgaaggaag-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaccttgggattgacttctgtcattgtgttgatatcgatgctcatgaaggaagCGAGAAAGGCAGCACAGAAAGGAATGGATGTGCAGAGGGTGGATGATAAAGTGAAAAAAGCTGTTGCACTCGCAAACCAGGCAGCCAATGCTGCACGTGT
                              ttgatat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcgaatttagagaaatggctttgcagcttagaaagtcgcgtgtcgtttaccttgggattgacttctgtcattgtgttgatatcgatgctcatgaaggaagCGAGAAAGGCAGCACAGAAAGGAATGGATGTGCAGAGGGTGGATGATAAAGTGAAAAAAGCTGTTGCACTCGCAAACCAGGCAGCCAATGCTGCACGTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC