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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gccattcctgttggtctagatatcttatttagattagctctcttcgggatcatatccagggttagagtttctgaaatgtaccggaggttgagagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCAGCAGGAGAAGTTGATTTGTCGAAATATGTATTACCCAC

Basic information

species Physcomitrella patens
transcript PP1S101_225V6.1
intron # 6
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|162152920|gb|FC329222.1|FC329222
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
EST: gi|100387744|gb|BY951744.1|BY951744
EST:     TTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTTCA-TGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCC
genomic: TTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATT-CAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCC
EST: gi|100427422|gb|BY977489.1|BY977489
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGA
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGA
EST: gi|100401204|gb|BY990883.1|BY990883
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
EST: gi|100361028|gb|BY946877.1|BY946877
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
EST: gi|18368096|gb|BJ200181.1|BJ200181
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
EST: gi|162230234|gb|FC406590.1|FC406590
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
EST: gi|100383945|gb|BY987202.1|BY987202
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
EST: gi|100402689|gb|BY954960.1|BY954960
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
EST: gi|100436231|gb|BY979445.1|BY979445
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTGGGACCTGATCACCACTCCA
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
EST: gi|100353340|gb|BY964757.1|BY964757
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCT
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCT
EST: gi|100443767|gb|BY963864.1|BY963864
EST:     ATTTCGGGCAGTCCCCAATCTATGTGGGACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGC
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGC
EST: gi|208345511|gb|DC909201.1|DC909201
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
EST: gi|100396655|gb|BY990233.1|BY990233
EST:     ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGAT                         GTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA
genomic: ATTTCCGGCAGTCCCCAATCTATGTGGAACTTGTCGACTTATTCAATGATgtaagtttgt ... agagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggatcatatccagggttagagtttctgaaatgtaccggaggttgagagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCAGCAGGAGAAGTTGATTTGTCGAAATATGTATTACCCAC
                            aaatgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gccattcctgttggtctagatatcttatttagattagctctcttcgggatcatatccagggttagagtttctgaaatgtaccggaggttgagagacgcagGTCGAGTATCAGACAGCCTCTGGACAGATGTTGGACCTGATCACCACTCCAGCAGGAGAAGTTGATTTGTCGAAATATGTATTACCCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT