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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAACACTCAGGAGCTGAAATGACCAGTATGGAGTGGATTGCGCGACTGCAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATGgtaatgtccaaatctgcagtgaaaacagatgttgtgtttcagtttttatttcgtaaattgtaaaggacacggttgtatgcttgttgtgtcctcgttacgg...

Basic information

species Physcomitrella patens
transcript PP1S9_37V6.3
intron # 6
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|208350152|gb|DC926107.1|DC926107
EST:     CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATG                         GCCAGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
genomic: CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATGgtaatgtcca ... ttgtttgtagGCCAGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
EST: gi|67693428|gb|BJ953661.1|BJ953661
EST:     CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATAT-                         ----GACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
genomic: CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATGgtaatgtcca ... ttgtttgtagGCCAGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
EST: gi|18333102|gb|BJ165116.1|BJ165116
EST:     CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATG                         GCCAGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
genomic: CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATGgtaatgtcca ... ttgtttgtagGCCAGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
EST: gi|208365628|gb|DC944112.1|DC944112
EST:     CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATG                         GCCAGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
genomic: CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATGgtaatgtcca ... ttgtttgtagGCCAGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
EST: gi|208383754|gb|DC928057.1|DC928057
EST:     CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATG                         GCCAGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
genomic: CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATGgtaatgtcca ... ttgtttgtagGCCAGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
EST: gi|208378446|gb|DC923082.1|DC923082
EST:     CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATG                         GCCAGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
genomic: CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATGgtaatgtcca ... ttgtttgtagGCCAGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAAG
EST: gi|208382557|gb|DC923199.1|DC923199
EST:     CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTNGGTTTTATATG                         GCCACGACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGNTAA
genomic: CAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATGgtaatgtcca ... ttgtttgtagGCCA-GACGTCGTGCATTATTGAGGAAAATGTCCCGGGCCCATATTGTTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAAACACTCAGGAGCTGAAATGACCAGTATGGAGTGGATTGCGCGACTGCAAAGAAGAAGATTTCTATGTCGGGTGCTACGTCCGCTGGGTTTTATATGgtaatgtccaaatctgcagtgaaaacagatgttgtgtttcagtttttatttcgtaaattgtaaaggacacggttgtatgcttgttgtgtcctcgttacgg

- - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG