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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGCCTTGCCGAGTTTGTTACCAGCAGCCTGGTCCTAAGTTTGATCCTTCCAAATCCCGCTCCTTTCGCAAGGCTGCTTGCACCGATAACCTGTGTAATgtaagtgttgtaattaaatgctgtttcttaccaatccctcgcacggtttgtctgaattcattgacttaccgcggatagacaaccttttgggatgatcatt...

Basic information

species Physcomitrella patens
transcript PP1S6_39V6.1
intron # 2
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|100414206|gb|BY992663.1|BY992663
EST:     CCAAATCCCGCTCCTTTCGCA-GGCTGCTTGCACCGATAACCTGTGTAAT                         GCTCTTCCTCTT
genomic: CCAAATCCCGCTCCTTTCGCAAGGCTGCTTGCACCGATAACCTGTGTAATgtaagtgttg ... gttgtcccagGCTCTTCCTCTT
EST: gi|208375610|gb|DC902827.1|DC902827
EST:     CCAAATCCCGCTCCTTTCGCAAGGCTGCTTGCACCGATAACCTGTGTAAT                         GCTCTTCCTCTTAAGGCTTGTGCTGCCAACGTCTGTCAATATCAATATACG
genomic: CCAAATCCCGCTCCTTTCGCAAGGCTGCTTGCACCGATAACCTGTGTAATgtaagtgttg ... gttgtcccagGCTCTTCCTCTTAAGGCTTGTGCTGCCAACGTCTGTCAATATCAATATACG
EST: gi|208384726|gb|DC915273.1|DC915273
EST:     CCAAATCCCGCTCCTTTCGCAAGGCTGCTTGCACCGATAACCTGTGTAAT                         GCTCTTCCTCTTAAGGCTTGTGCTGCCAACGTCTGTCAATATCAATATACG
genomic: CCAAATCCCGCTCCTTTCGCAAGGCTGCTTGCACCGATAACCTGTGTAATgtaagtgttg ... gttgtcccagGCTCTTCCTCTTAAGGCTTGTGCTGCCAACGTCTGTCAATATCAATATACG
EST: gi|100422995|gb|BY958103.1|BY958103
EST:     CCAAATCCCGCTCCTTTCGCAAGGCTGCTTGCACCGATAACCTGTGTAAT                         GCTCTTCCTCTTAAGGCTTGTGCTGCCAACGTCTGTCAATATCAATATACG
genomic: CCAAATCCCGCTCCTTTCGCAAGGCTGCTTGCACCGATAACCTGTGTAATgtaagtgttg ... gttgtcccagGCTCTTCCTCTTAAGGCTTGTGCTGCCAACGTCTGTCAATATCAATATACG
EST: gi|100375001|gb|BY949146.1|BY949146
EST:     CAAATCCCGCTCCTTTCGNCA-GGCTGCTTGCACCGATAACCTGTGTAAT                         GCTCTTCCCTCTTA-GGCTTGTGCTGCCAACGTCTGTCAATATCAATATAC
genomic: CAAATCCCGCTCCTTTCG-CAAGGCTGCTTGCACCGATAACCTGTGTAATgtaagtgttg ... gttgtcccagGCTCTTCC-TCTTAAGGCTTGTGCTGCCAACGTCTGTCAATATCAATATAC
EST: gi|100414271|gb|BY992695.1|BY992695
EST:     CAAATCCCGCTCCTTTCGNCA-GGCTGCTTGCACCGATNACCTGTGTAAT                         GCTCTTCCCTCTTAAG-CTTGTGCTGCCAACGTCTGTCAATATCAATATAC
genomic: CAAATCCCGCTCCTTTCG-CAAGGCTGCTTGCACCGATAACCTGTGTAATgtaagtgttg ... gttgtcccagGCTCTTCC-TCTTAAGGCTTGTGCTGCCAACGTCTGTCAATATCAATATAC
EST: gi|208391626|gb|DC938239.1|DC938239
EST:     CCAAATCCCGCTCCTTTCGCAAGGCTGCTTGCACCGATAACCTGTGTAAT                         GCTCTTCCTCTTAAGGCTTGTGCTGCCAACGTCTGTCAATATCAATATACG
genomic: CCAAATCCCGCTCCTTTCGCAAGGCTGCTTGCACCGATAACCTGTGTAATgtaagtgttg ... gttgtcccagGCTCTTCCTCTTAAGGCTTGTGCTGCCAACGTCTGTCAATATCAATATACG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTGCCTTGCCGAGTTTGTTACCAGCAGCCTGGTCCTAAGTTTGATCCTTCCAAATCCCGCTCCTTTCGCAAGGCTGCTTGCACCGATAACCTGTGTAATgtaagtgttgtaattaaatgctgtttcttaccaatccctcgcacggtttgtctgaattcattgacttaccgcggatagacaaccttttgggatgatcatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT