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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttggaaggaccctgctgtcggcagtatgtttcgttatgtgaaattaatttcatcgtctacttcagaataccaggaacgttttcgtgaagtattgtgcgtttatcaaatccacaatgtattttgatgggtgcatacagtgcaggtacttaagctgtgtgatgctttgaatgtttgtgcgacagTGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGTGAGATTAGTGGAGGCAACCAAGTGGATTCAACTGCGTTTTACCTGTGCC

Basic information

species Physcomitrella patens
transcript PP1S9_162V6.1
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|67717279|gb|BJ967538.1|BJ967538
EST:     GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAG                         TGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT
genomic: GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAGgtacttggaa ... tgtgcgacagTGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT
EST: gi|18356455|gb|BJ188514.1|BJ188514
EST:     GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAG                         TGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT
genomic: GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAGgtacttggaa ... tgtgcgacagTGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT
EST: gi|100447259|gb|CJ971558.1|CJ971558
EST:     GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAG                         TGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT
genomic: GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAGgtacttggaa ... tgtgcgacagTGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT
EST: gi|208370621|gb|DC936137.1|DC936137
EST:     GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAG                         TGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT
genomic: GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAGgtacttggaa ... tgtgcgacagTGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT
EST: gi|67712638|gb|BJ966087.1|BJ966087
EST:     GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAG                         TGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT
genomic: GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAGgtacttggaa ... tgtgcgacagTGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT
EST: gi|208353685|gb|DC949761.1|DC949761
EST:     GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAG                         TGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT
genomic: GTGTGCAAATATACCGCGAAAAGGATCCCGACAGCTTCGACGGAAAGGAGgtacttggaa ... tgtgcgacagTGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgcatacagtgcaggtacttaagctgtgtgatgctttgaatgtttgtgcgacagTGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGTGAGATTAGTGGAGGCAACCAAGTGGATTCAACTGCGTTTTACCTGTGCC
                tacttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttggaaggaccctgctgtcggcagtatgtttcgttatgtgaaattaatttcatcgtctacttcagaataccaggaacgttttcgtgaagtattgtgcgtttatcaaatccacaatgtattttgatgggtgcatacagtgcaggtacttaagctgtgtgatgctttgaatgtttgtgcgacagTGGGTAGGCTGCGACAATCGGACTTGTCGACGCTGGGTGCATGTGGAATGTGAGATTAGTGGAGGCAACCAAGTGGATTCAACTGCGTTTTACCTGTGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA