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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCCAATGGAGAGGAGGGAGATTATGCCACTCTATGCAAGAGTCCTAAGGCACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatccatagttgctctgttgatttcttatgttcttctaacggtgcttatagtcgaccgtacgcagtcacataatgttttagatatcacaccacct...

Basic information

species Physcomitrella patens
transcript PP1S47_161V6.1
intron # 17
splice site 5'
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|162149872|gb|FC326195.1|FC326195
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGCTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|162174483|gb|FC350762.1|FC350762
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGCTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|162269048|gb|FC445540.1|FC445540
EST:     CACAGAAATTCTTTTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTTTCAACCGTTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|162196991|gb|FC375216.1|FC375216
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGCTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|162150281|gb|FC326366.1|FC326366
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGCTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|13250964|gb|BG361867.1|BG361867
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|162269049|gb|FC445541.1|FC445541
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|162167247|gb|FC342812.1|FC342812
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGCTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|162194188|gb|FC371039.1|FC371039
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGCTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|162177647|gb|FC353233.1|FC353233
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGCTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|162177648|gb|FC353234.1|FC353234
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGCTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|162151929|gb|FC328890.1|FC328890
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGCTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
EST: gi|67692540|gb|BJ952773.1|BJ952773
EST:     CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGG                         CTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC
genomic: CACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatcc ... atatctgcagCTGAAAGGTTTTGAGTTCATCAAAGCGGTGCACTTAGATTCTCAACCGTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCCAATGGAGAGGAGGGAGATTATGCCACTCTATGCAAGAGTCCTAAGGCACAGAAATTCATCTTATCAGAGCTGACAAACATGGGCAAGAAGAAAGGGgtgagtatccatagttgctctgttgatttcttatgttcttctaacggtgcttatagtcgaccgtacgcagtcacataatgttttagatatcacaccacct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA