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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTCCTCCTCTGGGTTTCTGCAGTTTCGATACTCAAGCTTTCTCATTCAAGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAGgtaattgtcatgtttttcgtcatattgagaccatgcccacaatgttatttgcttctgatgcaattactatatgttcttttggcagccctcttgaacaagg...

Basic information

species Physcomitrella patens
transcript PP1S55_276V6.1
intron # 2
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|208348584|gb|DC913256.1|DC913256
EST:     AGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAG                         TTGAATGAGACTACGTTGGAAAAAGCGTTAGGCCTGGTGCACAGTAGCAAT
genomic: AGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAGgtaattgtca ... tgttgtgcagTTGAATGAGACTACGTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAAT
EST: gi|100448146|gb|CJ972445.1|CJ972445
EST:     AGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAG                         TTGAATGAGACTACNTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAAT
genomic: AGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAGgtaattgtca ... tgttgtgcagTTGAATGAGACTACGTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAAT
EST: gi|208377300|gb|DC927016.1|DC927016
EST:     AGCACAATCATGCTGNCTNTGACCAGCCACTNTCCGCTCGAGTTGCGGAG                         TTGAATGAGACTACGTTGGGAAAAAGCGTTAGGCCTGGTGCACAGTAGCAA
genomic: AGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAGgtaattgtca ... tgttgtgcagTTGAATGAGACTACGTT-GGAAAAAGCGTTAGACCTGGTGCACAGTAGCAA
EST: gi|162263049|gb|FC439338.1|FC439338
EST:     CTCGAGTTGCGGAG                         TTGAATGAGACTACGTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAAT
genomic: CTCGAGTTGCGGAGgtaattgtca ... tgttgtgcagTTGAATGAGACTACGTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAAT
EST: gi|208347059|gb|DC901866.1|DC901866
EST:     AGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAG                         TTGAATGAGACTACGTTGGAAAGAGCGTTAGACCTGGTGCACAGTANCAAT
genomic: AGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAGgtaattgtca ... tgttgtgcagTTGAATGAGACTACGTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAAT
EST: gi|100418045|gb|BY993309.1|BY993309
EST:     GCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTTGCG-AG                         TTGAATGAGACTACGTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAA
genomic: GCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTT-GCGGAGgtaattgtca ... tgttgtgcagTTGAATGAGACTACGTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAA
EST: gi|208387699|gb|DC937264.1|DC937264
EST:     AGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAG                         TTGAATGAGACTACGTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAAT
genomic: AGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAGgtaattgtca ... tgttgtgcagTTGAATGAGACTACGTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAAT
EST: gi|100386374|gb|BY988041.1|BY988041
EST:     AGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAG                         TTGAATGAGACTACGTTGGAAAA-GCGTTAGACCTGGTGCACAGTAGCAA
genomic: AGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAGgtaattgtca ... tgttgtgcagTTGAATGAGACTACGTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAA
EST: gi|100373539|gb|BY948973.1|BY948973
EST:     CACA-TCATGCTGCCTCTGNNAC-AGC-ACTATCCGCTCGAGTTGCGGAG                         TTGAATGAGACTACGTTGGANNAAGCGTTAGACCTGGTGCACAGTAGCAAT
genomic: CACAATCATGCTGCCTCTG--ACCAGCCACTATCCGCTCGAGTTGCGGAGgtaattgtca ... tgttgtgcagTTGAATGAGACTACGTTGGAAAAAGCGTTAGACCTGGTGCACAGTAGCAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCTCCTCCTCTGGGTTTCTGCAGTTTCGATACTCAAGCTTTCTCATTCAAGCACAATCATGCTGCCTCTGACCAGCCACTATCCGCTCGAGTTGCGGAGgtaattgtcatgtttttcgtcatattgagaccatgcccacaatgttatttgcttctgatgcaattactatatgttcttttggcagccctcttgaacaagg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC