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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaaatttgttatgctactaccaagtacctgctgtgattctgttctgtgcaaatacattcctgttacctttcatcactaaattgtgtaaacttgaccctacattccattttcttctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCCGTTAAGGAGTTCGGGGCTTTAGATACTTCCGCCCTGCAGAAGTATGTTG

Basic information

species Physcomitrella patens
transcript PP1S152_87V6.1
intron # 17
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|162166154|gb|FC342591.1|FC342591
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162170485|gb|FC347644.1|FC347644
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|18333971|gb|BJ165987.1|BJ165987
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTNAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162198122|gb|FC373072.1|FC373072
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162193748|gb|FC371275.1|FC371275
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162196621|gb|FC374911.1|FC374911
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162159475|gb|FC336264.1|FC336264
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|37850442|gb|BJ608450.1|BJ608450
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162193749|gb|FC371276.1|FC371276
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162215686|gb|FC391414.1|FC391414
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|18332811|gb|BJ164824.1|BJ164824
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162192137|gb|FC368286.1|FC368286
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162192138|gb|FC368287.1|FC368287
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162196875|gb|FC375152.1|FC375152
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|67579146|gb|BJ951297.1|BJ951297
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATNGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162166155|gb|FC342592.1|FC342592
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162244980|gb|FC424938.1|FC424938
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|162170471|gb|FC347643.1|FC347643
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|67691660|gb|BJ951893.1|BJ951893
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
EST: gi|208381985|gb|DC923844.1|DC923844
EST:     TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAG                         GGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC
genomic: TTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttg ... tctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcatcactaaattgtgtaaacttgaccctacattccattttcttctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCCGTTAAGGAGTTCGGGGCTTTAGATACTTCCGCCCTGCAGAAGTATGTTG
                           ccctacattccatttt  CT-rich tract
       actaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaaatttgttatgctactaccaagtacctgctgtgattctgttctgtgcaaatacattcctgttacctttcatcactaaattgtgtaaacttgaccctacattccattttcttctcttacagGGCCCGTCTATGGAAGCTACAAAGAAGCTGGGAGAGTTTGTCCTTTCAGCCGTTAAGGAGTTCGGGGCTTTAGATACTTCCGCCCTGCAGAAGTATGTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT