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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATATGGACGCAGCCGATCGGTTATTGGAAAAGCATCATCTGAGTGCTTACATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagcttacctacacatctcgcttcttttctacgcaatcgtactgcatgttcataactatgcctgactaccttgaaattttacttgatttttttaaagttcctataggctctctcttaattcaagttcaatcttttgtctatgtttgaag

Basic information

species Physcomitrella patens
transcript PP1S41_177V6.1
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|162192525|gb|FC368635.1|FC368635
EST:     CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAG                         ACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
genomic: CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagctt ... atgtttgaagACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
EST: gi|18345999|gb|BJ178042.1|BJ178042
EST:     CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAG                         ACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
genomic: CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagctt ... atgtttgaagACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
EST: gi|162230102|gb|FC406250.1|FC406250
EST:     CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAG                         ACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
genomic: CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagctt ... atgtttgaagACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
EST: gi|18344702|gb|BJ176743.1|BJ176743
EST:     CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAG                         ACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
genomic: CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagctt ... atgtttgaagACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
EST: gi|208350063|gb|DC910298.1|DC910298
EST:     CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAG                         ACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
genomic: CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagctt ... atgtttgaagACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
EST: gi|162263739|gb|FC439638.1|FC439638
EST:     CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAG                         ACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
genomic: CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagctt ... atgtttgaagACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
EST: gi|100353603|gb|BY964889.1|BY964889
EST:     CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAG                         ACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
genomic: CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagctt ... atgtttgaagACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
EST: gi|208354187|gb|DC902443.1|DC902443
EST:     CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAG                         ACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
genomic: CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagctt ... atgtttgaagACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
EST: gi|100389012|gb|BY952216.1|BY952216
EST:     CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAG                         ACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
genomic: CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagctt ... atgtttgaagACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
EST: gi|67569370|gb|BJ942194.1|BJ942194
EST:     CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAG                         ACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA
genomic: CATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagctt ... atgtttgaagACCTCAATCGTCTCTTTCATTTGCAAGTTGCGATGCTGATAAACTATCCGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATATGGACGCAGCCGATCGGTTATTGGAAAAGCATCATCTGAGTGCTTACATCCTTCCTTTACGCATCGAAGCAGCTCAACTCTGTTGTCAGATCATAGgtatgagcttacctacacatctcgcttcttttctacgcaatcgtactgcatgttcataactatgcctgactaccttgaaattttacttgatttttttaaagttcctataggctctctcttaattcaagttcaatcttttgtctatgtttgaag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA