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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCATTGTGTTGGATCGCACACTCGTTTAGAAAATCATGTCGCAGAACTTAAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacacgtcaactttgctgcttcaaagtggggtttagggttttagtgatttctctgtgtttgtggggatcgccgttggaaaatcttatagatttag...

Basic information

species Physcomitrella patens
transcript PP1S39_248V6.1
intron # 1
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|100450985|gb|CJ974539.1|CJ974539
EST:     AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATG                         TTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
genomic: AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacac ... tgagatgcagTTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
EST: gi|100441417|gb|BY962706.1|BY962706
EST:     AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATG                         TTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
genomic: AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacac ... tgagatgcagTTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
EST: gi|100360990|gb|BY946858.1|BY946858
EST:     AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATG                         TTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
genomic: AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacac ... tgagatgcagTTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
EST: gi|208347324|gb|DC909715.1|DC909715
EST:     AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATG                         TTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
genomic: AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacac ... tgagatgcagTTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
EST: gi|100417876|gb|BY993228.1|BY993228
EST:     AAGTATTCTTGGGGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATG                         TTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
genomic: AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacac ... tgagatgcagTTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
EST: gi|18358450|gb|BJ190509.1|BJ190509
EST:     AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCANAATG                         TTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGNTAGGGC-AG
genomic: AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacac ... tgagatgcagTTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
EST: gi|208360034|gb|DC934923.1|DC934923
EST:     AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATG                         TTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
genomic: AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacac ... tgagatgcagTTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
EST: gi|100449912|gb|CJ973999.1|CJ973999
EST:     AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATG                         TTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
genomic: AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacac ... tgagatgcagTTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
EST: gi|18373059|gb|BJ204661.1|BJ204661
EST:     AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATG                         TTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGG-CAG
genomic: AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacac ... tgagatgcagTTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
EST: gi|67719559|gb|BJ969818.1|BJ969818
EST:     AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATG                         TTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG
genomic: AAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacac ... tgagatgcagTTATGGCTTGTCAAGCCATCGCCAACATTGTGAAAACTTCGTTAGGGCCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCATTGTGTTGGATCGCACACTCGTTTAGAAAATCATGTCGCAGAACTTAAGTATTCTTGGAGATCGGCAGACTGGCCAAGATGTCCGCTCTCAGAATGgttggaacacgtcaactttgctgcttcaaagtggggtttagggttttagtgatttctctgtgtttgtggggatcgccgttggaaaatcttatagatttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG