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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTATGTTTGGATTGGGTGCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGGgtatcttcctcacccctgcaattgattatggctactgtgtttccagagacagttacaatgggatttaattgatgtttgcatttcattagtaggtttgaatttcggaacctcagattgctgagatcgcacgaaaaccttacgcatggacagttacatggtttaaaatcctggcactggttggcag

Basic information

species Physcomitrella patens
transcript PP1S78_6V6.2
intron # 3
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|162201050|gb|FC378181.1|FC378181
EST:     GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGG                         GATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT
genomic: GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGGgtatcttcct ... tggttggcagGATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT
EST: gi|18329265|gb|BJ161271.1|BJ161271
EST:     GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGG                         GATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGTG-ACAGTACT
genomic: GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGGgtatcttcct ... tggttggcagGATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT
EST: gi|162201051|gb|FC378182.1|FC378182
EST:     GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGG                         GATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT
genomic: GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGGgtatcttcct ... tggttggcagGATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT
EST: gi|162274901|gb|FC450552.1|FC450552
EST:     GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGG                         GATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT
genomic: GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGGgtatcttcct ... tggttggcagGATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT
EST: gi|37825069|gb|BJ583135.1|BJ583135
EST:     GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGG                         GATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT
genomic: GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGGgtatcttcct ... tggttggcagGATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT
EST: gi|18332695|gb|BJ164708.1|BJ164708
EST:     GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGG                         GATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGTG-ACAGTACT
genomic: GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGGgtatcttcct ... tggttggcagGATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT
EST: gi|162274902|gb|FC450553.1|FC450553
EST:     GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGG                         GATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT
genomic: GCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGGgtatcttcct ... tggttggcagGATAAAACTGCAAGTGTAGCAGCTCTAGTCGGAGGTGGGGCGGACAGTACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGTATGTTTGGATTGGGTGCAATTCCGCTCGTATGGGAAATTTATATGCAGCTCTCCCTACGAGATGGgtatcttcctcacccctgcaattgattatggctactgtgtttccagagacagttacaatgggatttaattgatgtttgcatttcattagtaggtttgaatttcggaacctcagattgctgagatcgcacgaaaaccttacgcatggacagttacatggtttaaaatcctggcactggttggcag

- - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG