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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCAGCGCCTCTCATCAGCTTCTTACAGAACCCAGCTCTTGTTCAAGAGCTACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAGgttagctatttttcaaggaagttattatccttaagtggcaatccagtcgcttcaaatagctttcagtcaggtcgtgtcgataccaggagtacttatgcag...

Basic information

species Physcomitrella patens
transcript PP1S363_21V6.2
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|100384564|gb|BY987423.1|BY987423
EST:     TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAG                         ATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
genomic: TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAGgttagctatt ... ttgtttgtagATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
EST: gi|100375987|gb|BY968260.1|BY968260
EST:     CGGTCTGATAAGCAGTACAACCTCCAAAAATGT-GCA-GAACGGTACCAG                         ATNCG-TTCTGAGNCAA-TCGAGGCTCTGTATCAGTATGC-AAGTTCCAGT
genomic: CGGTCTGATAAGCAGTACAACCTCCAAA--TGTTGCAAGAACGGTACCAGgttagctatt ... ttgtttgtagAT-CGGTTCTGAG-CAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGT
EST: gi|18358262|gb|BJ190321.1|BJ190321
EST:     TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAG                         ATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
genomic: TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAGgttagctatt ... ttgtttgtagATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
EST: gi|100389405|gb|BY988883.1|BY988883
EST:     TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAG                         ATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
genomic: TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAGgttagctatt ... ttgtttgtagATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
EST: gi|18329284|gb|BJ161290.1|BJ161290
EST:     TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAG                         ATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGT
genomic: TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAGgttagctatt ... ttgtttgtagATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGT
EST: gi|19781185|gb|BQ039664.1|BQ039664
EST:     TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAG                         ATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
genomic: TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAGgttagctatt ... ttgtttgtagATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
EST: gi|67568984|gb|BJ941808.1|BJ941808
EST:     TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAG                         ATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
genomic: TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAGgttagctatt ... ttgtttgtagATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
EST: gi|100404357|gb|BY973536.1|BY973536
EST:     TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAG                         ATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
genomic: TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAGgttagctatt ... ttgtttgtagATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
EST: gi|67709902|gb|BJ965718.1|BJ965718
EST:     TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAG                         ATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT
genomic: TACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAGgttagctatt ... ttgtttgtagATCGGTTCTGAGCAAATCGAGGCTCTGTATCAGTATGCCAAGTTCCAGTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCAGCGCCTCTCATCAGCTTCTTACAGAACCCAGCTCTTGTTCAAGAGCTACGGTCTGATAAGCAGTACAACCTCCAAATGTTGCAAGAACGGTACCAGgttagctatttttcaaggaagttattatccttaagtggcaatccagtcgcttcaaatagctttcagtcaggtcgtgtcgataccaggagtacttatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC