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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaatattcatggttttctactgcagtaaattggaccgtttgtttattggaattgagtagatcatgataatacgcggtttccatcttgggcttcttacagAAATTTCTAAGCGCTGAGGCATTGAAATCAAGATATGCTGGCAATCTTCCACCCGAGCCCCGCATAAGCAGTTTCAAGAAGGCATCGATCAGCAATATAA

Basic information

species Physcomitrella patens
transcript PP1S82_30V6.1
intron # 4
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|208374665|gb|DC931990.1|DC931990
EST:     CGATGAAATCAGCCAGTGAGTTTATCTCAACATTCGACCCCTCGGTGCAT                         AAATTTCTAAGCGCTGAGGCATTGAAATCAAGATATGCTGGCAATCTTCCA
genomic: CGATGAAATCAGCCAGTGAGTTTATCTCAACATTCGACCCCTCGGTGCATgtacaacctc ... cttcttacagAAATTTCTAAGCGCTGAGGCATTGAAATCAAGATATGCTGGCAATCTTCCA
EST: gi|100426566|gb|BY977294.1|BY977294
EST:     CGATGAAATCAGCCAGTGAGTTTATCTCAACATTCGACCCCTCGGTGCAT                         AAATTTCTAAGCGCTGAGGCATTGAAATCAAGATATGCTGGCAATCTTCCA
genomic: CGATGAAATCAGCCAGTGAGTTTATCTCAACATTCGACCCCTCGGTGCATgtacaacctc ... cttcttacagAAATTTCTAAGCGCTGAGGCATTGAAATCAAGATATGCTGGCAATCTTCCA
EST: gi|18331006|gb|BJ163012.1|BJ163012
EST:     CGATGAAATCAGCCAGTGAGTTTATCTCAACATTCGACCCCTCGGTGCAT                         AAATTTCTAAGCGCTGAGGCATTGAAATCAAGATATGCTGGCAATCTTCCA
genomic: CGATGAAATCAGCCAGTGAGTTTATCTCAACATTCGACCCCTCGGTGCATgtacaacctc ... cttcttacagAAATTTCTAAGCGCTGAGGCATTGAAATCAAGATATGCTGGCAATCTTCCA
EST: gi|162228506|gb|FC404130.1|FC404130
EST:     CGATGAAATCAGCCAGTGAGTTTATCTCAACATTCGACCCCTCGGTGCAT                         AAATTTCTAAGCGCTGAGGCATTGAAATCAAGATATGCTGGCAATCTTCCA
genomic: CGATGAAATCAGCCAGTGAGTTTATCTCAACATTCGACCCCTCGGTGCATgtacaacctc ... cttcttacagAAATTTCTAAGCGCTGAGGCATTGAAATCAAGATATGCTGGCAATCTTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attggaattgagtagatcatgataatacgcggtttccatcttgggcttcttacagAAATTTCTAAGCGCTGAGGCATTGAAATCAAGATATGCTGGCAATCTTCCACCCGAGCCCCGCATAAGCAGTTTCAAGAAGGCATCGATCAGCAATATAA
                                             cttcttac  CT-rich tract
                  atgataata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaatattcatggttttctactgcagtaaattggaccgtttgtttattggaattgagtagatcatgataatacgcggtttccatcttgggcttcttacagAAATTTCTAAGCGCTGAGGCATTGAAATCAAGATATGCTGGCAATCTTCCACCCGAGCCCCGCATAAGCAGTTTCAAGAAGGCATCGATCAGCAATATAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - tactgca