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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatcatattgtacctgtttgtttcttttggtctgtttctcttcaatcttcgtcgagttcaatatgcgttttggatcctcaaatacaattagtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGTG

Basic information

species Physcomitrella patens
transcript PP1S7_156V6.1
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|100446463|gb|CJ970762.1|CJ970762
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCNTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|162223608|gb|FC399420.1|FC399420
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|162270682|gb|FC446295.1|FC446295
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208354657|gb|DC934301.1|DC934301
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCANGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208360044|gb|DC934933.1|DC934933
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|162274023|gb|FC450370.1|FC450370
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|100421795|gb|BY993647.1|BY993647
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208384409|gb|DC928160.1|DC928160
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGGTGTCTTCATTGTCTTCAG
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAA-GGGTGTCTTCATTGTCTTCAG
EST: gi|208363910|gb|DC939559.1|DC939559
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208352142|gb|DC906273.1|DC906273
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGANTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|100447685|gb|CJ971984.1|CJ971984
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|100383551|gb|BY950335.1|BY950335
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208390935|gb|DC942239.1|DC942239
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCA-GGGTGTCTNCATTGTCTNCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208361725|gb|DC934965.1|DC934965
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGT-CCTCANGG-TGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208346716|gb|DC913362.1|DC913362
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCANGG-TGTCTTCATGGTCTNCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208375943|gb|DC914410.1|DC914410
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCANGATAGAGGAGTTCCTCAAGGGTGTCTTCAT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCAT
EST: gi|208379626|gb|DC927123.1|DC927123
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208391473|gb|DC937621.1|DC937621
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208372285|gb|DC936443.1|DC936443
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208353244|gb|DC913918.1|DC913918
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCA-GGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208393881|gb|DC938464.1|DC938464
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACC-AAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTNCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208358324|gb|DC930709.1|DC930709
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCA
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCA
EST: gi|100384726|gb|BY950716.1|BY950716
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|162203673|gb|FC378548.1|FC378548
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|100383470|gb|BY950254.1|BY950254
EST:     TCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTTGAG                         -TCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAG
genomic: TCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTT-GAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAG
EST: gi|208386794|gb|DC937186.1|DC937186
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|100405432|gb|BY955522.1|BY955522
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208391423|gb|DC937571.1|DC937571
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208366691|gb|DC931348.1|DC931348
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|67508690|gb|BJ941551.1|BJ941551
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGAT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGAT
EST: gi|208379943|gb|DC927669.1|DC927669
EST:     CTCTCACAAGTGAGATATGTGCTCC-TTNGNTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208355278|gb|DC929767.1|DC929767
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|208355422|gb|DC929841.1|DC929841
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGACCCAAGATAGAGGAGTTCCTCANGG-TGTCTTCATTGTCTNCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT
EST: gi|100355867|gb|BY946078.1|BY946078
EST:     CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAG                         GTCCGAACCAAGATAGAGGAGTTCCTCAAGGGTGCCTTCATTGTCTTCAGT
genomic: CTCTCACAAGTGAGATATGTGCTCCTTTGGTTGCTACTCTTCCACTTGAGgtaatagttc ... gtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttcgtcgagttcaatatgcgttttggatcctcaaatacaattagtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGTG
                                              tgttctc  CT-rich tract
                                  aaatacaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatcatattgtacctgtttgtttcttttggtctgtttctcttcaatcttcgtcgagttcaatatgcgttttggatcctcaaatacaattagtgttctcagGTCCGACCCAAGATAGAGGAGTTCCTCAAGGGTGTCTTCATTGTCTTCAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG