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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataagctgaaccacgtcttgcagaagtagacgaaatttgttcgggtcctttcttcattggtttttttgtaacatcagtccaagttgatggttattggctcctcatttttcagATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACTCGTCAATAACGTCCCTCTTCCATTGGACATGCGTGGCGAGCTGGATGATACTGCTCTTTT

Basic information

species Physcomitrella patens
transcript PP1S63_54V6.2
intron # 7
splice site 3'
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|67574237|gb|BJ947061.1|BJ947061
EST:     TCGACCTATTATTGAAGCTTTTCTGAAGGGCTCATTCGCTGTCTTTGAAG                         ATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACT
genomic: TCGACCTATTATTGAAGCTTTTCTGAAGGGCTCATTCGCTGTCTTTGAAGgtataagctg ... catttttcagATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACT
EST: gi|208363504|gb|DC935269.1|DC935269
EST:     TCGACCTATTATTGAANCTTTTCTGAAGGGCTCATTCNCTGTCTTTGAA-                         ANTTGGACTTC
genomic: TCGACCTATTATTGAAGCTTTTCTGAAGGGCTCATTCGCTGTCTTTGAAGgtataagctg ... catttttcagATTTGGACTTC
EST: gi|100401167|gb|BY990864.1|BY990864
EST:     TCGACCTATTATTGAAGCTTTTCTGAAGGGCTCATTCGCTGTCTTTGAAG                         ATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACTCGTCAATAACG
genomic: TCGACCTATTATTGAAGCTTTTCTGAAGGGCTCATTCGCTGTCTTTGAAGgtataagctg ... catttttcagATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACTCGTCAATAACG
EST: gi|162235868|gb|FC412419.1|FC412419
EST:     TCGACCTATTATTGAAGCTTTTCTGAAGGGCTCATTCGCTGTCTTTGAAG                         ATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACTCGTCAATAACG
genomic: TCGACCTATTATTGAAGCTTTTCTGAAGGGCTCATTCGCTGTCTTTGAAGgtataagctg ... catttttcagATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACTCGTCAATAACG
EST: gi|162219070|gb|FC394653.1|FC394653
EST:     TCGACCTATTATTGAAGCTTTTCTGAAGGGCTCATTCGCTGTCTTTGAAG                         ATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACTCGTCAATAACG
genomic: TCGACCTATTATTGAAGCTTTTCTGAAGGGCTCATTCGCTGTCTTTGAAGgtataagctg ... catttttcagATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACTCGTCAATAACG
EST: gi|208385420|gb|DC956632.1|DC956632
EST:     TGAAGCTTTTNTGNAGGGCTCATTCGCTGTC-TTGAAG                         ATTTGGACTTCACTTTGCTGGAGATGAACCCATTTACACTCGTCAATAACG
genomic: TGAAGCTTTTCTGAAGGGCTCATTCGCTGTCTTTGAAGgtataagctg ... catttttcagATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACTCGTCAATAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtttttttgtaacatcagtccaagttgatggttattggctcctcatttttcagATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACTCGTCAATAACGTCCCTCTTCCATTGGACATGCGTGGCGAGCTGGATGATACTGCTCTTTT
                                        ctcctcatttttc  CT-rich tract
     tttttgtaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtataagctgaaccacgtcttgcagaagtagacgaaatttgttcgggtcctttcttcattggtttttttgtaacatcagtccaagttgatggttattggctcctcatttttcagATTTGGACTTCACTCTGCTGGAGATGAACCCATTTACACTCGTCAATAACGTCCCTCTTCCATTGGACATGCGTGGCGAGCTGGATGATACTGCTCTTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA