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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGAGAAGTTGGGGAAGGACACTTTGCTTAATGTCGCTAAGACCAGCATGTCTTCCAAAATTATTGGGCCTGAATCCGATTTTTTTGCAAAGATGgtgtgtacctatctgtgcctcgtgatgtgagtgatgaaagggtggtagtgtggaacttttaccggtgtgaatggttactccaggaagcttgttcagtgta...

Basic information

species Physcomitrella patens
transcript PP1S39_248V6.1
intron # 7
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|100441417|gb|BY962706.1|BY962706
EST:     CATGTCTTCCAAAATTATTGGGCCTGAATCCGANNNNNNNNGCAAAGATG                         GTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGG
genomic: CATGTCTTCCAAAATTATTGGGCCTGAATCCGATTTTTTT-GCAAAGATGgtgtgtacct ... tcattaacagGTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGG
EST: gi|100360990|gb|BY946858.1|BY946858
EST:     ATGTCTTCCAAAATTATTGGGCCTGAATCCGANNNNNNNNGNCAA-GATG                         GTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGGCGACGT
genomic: ATGTCTTCCAAAATTATTGGGCCTGAATCCGATTTTTTT-G-CAAAGATGgtgtgtacct ... tcattaacagGTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGGCGACGT
EST: gi|208347324|gb|DC909715.1|DC909715
EST:     GCATGTCTTCCAAAATTATTGGGCCTGAATCCGANNNNNNNGCAAAGATG                         GTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGGCGACGTT
genomic: GCATGTCTTCCAAAATTATTGGGCCTGAATCCGATTTTTTTGCAAAGATGgtgtgtacct ... tcattaacagGTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGGCGACGTT
EST: gi|100417876|gb|BY993228.1|BY993228
EST:     GCATGTCTTCCAAAATTATTAGGCCTGAATCCGANNNNNNNGCAAAGATG                         GTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGGCGACGTT
genomic: GCATGTCTTCCAAAATTATTGGGCCTGAATCCGATTTTTTTGCAAAGATGgtgtgtacct ... tcattaacagGTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGGCGACGTT
EST: gi|208360034|gb|DC934923.1|DC934923
EST:     GCATGTCTTCCAAAATTATTGGGCCTGAATCCGANNNNNNNGCAAAGATG                         GTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGGCGACGTT
genomic: GCATGTCTTCCAAAATTATTGGGCCTGAATCCGATTTTTTTGCAAAGATGgtgtgtacct ... tcattaacagGTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGGCGACGTT
EST: gi|100449912|gb|CJ973999.1|CJ973999
EST:     GCATGTCTTCCCAAATTATTGGGCCTGAATCCGATTTTTT-GCAA-GATG                         GTGGTTGATGCTGTACA-GCTATCA-GGCTACTTCTGA
genomic: GCATGTCTTCCAAAATTATTGGGCCTGAATCCGATTTTTTTGCAAAGATGgtgtgtacct ... tcattaacagGTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGA
EST: gi|67719559|gb|BJ969818.1|BJ969818
EST:     CATGTCTTCCAAAATTATTGGGCCTGAATCCGANNNNNNNNGCAAAGATG                         GTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGGCGACGT
genomic: CATGTCTTCCAAAATTATTGGGCCTGAATCCGATTTTTTT-GCAAAGATGgtgtgtacct ... tcattaacagGTGGTTGATGCTGTACAAGCTATCAAGGCTACTTCTGATAGAGGCGACGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCGAGAAGTTGGGGAAGGACACTTTGCTTAATGTCGCTAAGACCAGCATGTCTTCCAAAATTATTGGGCCTGAATCCGATTTTTTTGCAAAGATGgtgtgtacctatctgtgcctcgtgatgtgagtgatgaaagggtggtagtgtggaacttttaccggtgtgaatggttactccaggaagcttgttcagtgta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG