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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCGTCAGAAGATTATGTTTGCCCTAACCTCCATCAAGGGAGTCGGGCGTCGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaatctcttcgtcttgagctctttgtttctcctcttgaaaattttgatgtgtgtgggtactttccagatcctaacgcttagattacatggtatc...

Basic information

species Physcomitrella patens
transcript PP1S215_71V6.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G062911_T01 (Zea mays), 5'ss of exon 2
GGCGTCAGAAGATTATGTTTGCCCTAACCTCCATCAAGGGAGTCGGGCGTCGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaatctcttcgtcttgagctctttgtttctcctcttgaaaattttgatgtgtgtgggtactttccagatcctaacgcttagattacatggtatc
|    |||||||| ||||||||||| |||||||||||||| ||||| |  | |||  | ||| | || ||||| |||||  || ||||||||| ||||  ||| |  |       | | |  |  |  | |||  | |   |       |   | || | || |  | |   |   | |   |       |   ||    
GCAAGCAGAAGATCATGTTTGCCCTCACCTCCATCAAGGGTGTCGGCCACCATTTCTCCAACATCGTCTGCAAAAAGGCCAACATCGACATGAACAAGCAgtgagttatagatggcttttgcaattgctagttggttcatgtagtggaatgagtatgagaggttcatgtagtggaacaagtacgagatgcaaggggcgct

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G130544_T01 (Zea mays), 5'ss of exon 1
GGCGTCAGAAGATTATGTTTGCCCTAACCTCCATCAAGGGAGTCGGGCGTCGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaatctcttcgtcttgagctctttgtttctcctcttgaaaattttgatgtgtgtgggtactttccagatcctaacgcttagattacatggtatc
||   |||||||| ||||| ||| | ||||| |||||||| |||||||| || ||  | ||| | || ||||||||||| ||| ||||||||| |||||||   |||   | |||   ||  |    | | | ||   |||      |   |||||| |  | ||  ||        |  || | ||  | ||       
GGAAGCAGAAGATCATGTTCGCCATGACCTCAATCAAGGGTGTCGGGCGCCGCTTCTCCAACATCGTCTGCAAGAAGGCCGACATCGACATGAACAAGAGgcaagcgtcgcgctttagctccaaggatat-tatcagatctctctggtgacgatgtg-gctgatatgttgtgatgttt--cggtgagtgtgcag------

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT1G22780.1 (Arabidopsis thaliana), 5'ss of exon 2
GGCGTCAGAAGATTATGTTTGCCCTAACCTCCATCAAGGGAGTCGGGCGTCGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaatct-cttcgtcttgagctctttgtttctcctcttgaaaattttgatgtg---tgtgggtactttccagatcctaacgcttagattacatggtatc
||   || || |||||||||||  | ||||| ||||||||  | ||  | || || |||||| | ||||||||||||||||| || ||||||| ||||||||  |    |   ||| ||  | |   ||||   |  | |    |   | | |||  |   | ||  | ||| | || |  |     ||||  || |   | | 
GGAAGCAAAAAATTATGTTTGCTTTGACCTCAATCAAGGGTATTGGAAGGCGATTGGCTAACATTGTGTGCAAGAAGGCTGATGTTGACATGAACAAGAGgtttgtttcttagcttggttcttaatactttcagttacttaggaattctatggataaggattatgaat-cttgcgaggttttggatgttag--tagaaaatgt-

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ25542 (Selaginella moellendorffii), 5'ss of exon 2
GGCGTCAGAAGATTATGTTTGCCCTAACCTCCATCAAGGGAGTCGGGCGTCGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaatctcttcgtcttgagct--ctttgtttctcctcttgaaaattttgatgtgtgtgggtactttccagatcctaacgcttagattacatggtatc
|||| |||||||||||||| || || || |||||||||||| | ||||| || || || ||| | || ||||||||||| || || ||||||| ||||||||        | |||  | ||   ||  || || |  |   ||  || || ||| | | |   |  | ||||  |||| |   | || |  | |   | || 
GGCGGCAGAAGATTATGTTCGCGCTGACTTCCATCAAGGGAATTGGGCGCCGATTCGCCAACATCGTCTGCAAGAAGGCGGATGTGGACATGAACAAGAGgtattgtttgccctttcttttcctcttgctctgctggtgagctgaaagatcttgttttctc--gtcattttcttgatctttcgggttgggcttctatggatg

upper sequence: PP1S215_71V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EFJ22352 (Selaginella moellendorffii), 5'ss of exon 2
GGCGTCAGAAGATTATGTTTGCCCTAACCTCCATCAAGGGAGTCGGGCGTCGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaatctcttcgtcttgagct-ctttgtttctcctcttgaaaattttgatgtgtgtgggtactttccagatcctaacgcttagattacatggtatc------------------------------------------------------------------------------------------
|||| |||||||||||||| || || || |||||||||||| | ||||| || || || ||| | || ||||||||||| || || ||||||| ||||||||  |     |  ||| | |     | || || |  |   ||  || || ||| | | |    ||  ||| |   |    | |  ||  || | || | |                                                                                           
GGCGGCAGAAGATTATGTTCGCGCTGACTTCCATCAAGGGAATTGGGCGCCGATTCGCCAACATCGTCTGCAAGAAGGCGGATGTGGACATGAACAAGAGgtatgtttgccctttcttttcctcttgctctgctggtgagctgaaagatcttgttttctc---gtcattttcttctatggatgactatcttccttgatctttcggattgattgattgagcttcttcattgatttgaaaaaaaaaatctgtgcttatcatttttctttgtttctttctcttccatcgaacag

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|18360229|gb|BJ192291.1|BJ192291
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|19777657|gb|BQ039210.1|BQ039210
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACTTGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|208386167|gb|DC949078.1|DC949078
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|18341741|gb|BJ173776.1|BJ173776
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|208357154|gb|DC926529.1|DC926529
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|18332399|gb|BJ164412.1|BJ164412
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|37842872|gb|BJ600880.1|BJ600880
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|67703682|gb|BJ963915.1|BJ963915
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|37852794|gb|BJ610802.1|BJ610802
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|67701937|gb|BJ962170.1|BJ962170
EST:     CGTTTTACTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAG
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAG
EST: gi|208344396|gb|DC912755.1|DC912755
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|67727082|gb|BJ977341.1|BJ977341
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162262789|gb|FC439039.1|FC439039
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162219637|gb|FC395633.1|FC395633
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|18344316|gb|BJ176356.1|BJ176356
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162225276|gb|FC402042.1|FC402042
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|18368996|gb|BJ201081.1|BJ201081
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|18359385|gb|BJ191446.1|BJ191446
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|208361710|gb|DC934950.1|DC934950
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|37853594|gb|BJ611602.1|BJ611602
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|37823511|gb|BJ581577.1|BJ581577
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162240837|gb|FC417508.1|FC417508
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|67699275|gb|BJ959508.1|BJ959508
EST:     CTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|37850282|gb|BJ608290.1|BJ608290
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|208392628|gb|DC933986.1|DC933986
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162237025|gb|FC413184.1|FC413184
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|7286711|gb|AW599198.1|AW599198
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162240836|gb|FC417507.1|FC417507
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|67575791|gb|BJ948615.1|BJ948615
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162213507|gb|FC389379.1|FC389379
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|18369441|gb|BJ201528.1|BJ201528
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGGGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162225277|gb|FC402043.1|FC402043
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162219636|gb|FC395632.1|FC395632
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|208356836|gb|DC926847.1|DC926847
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|37850750|gb|BJ608758.1|BJ608758
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGGGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162264508|gb|FC440843.1|FC440843
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|208370042|gb|DC948123.1|DC948123
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162246356|gb|FC422414.1|FC422414
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|67724116|gb|BJ974375.1|BJ974375
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162213506|gb|FC389378.1|FC389378
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162229537|gb|FC405871.1|FC405871
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|208346845|gb|DC913084.1|DC913084
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|67720427|gb|BJ970686.1|BJ970686
EST:     CGTTTTACTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|18371917|gb|BJ203519.1|BJ203519
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC
EST: gi|162237026|gb|FC413185.1|FC413185
EST:     CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAG                         GGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATTGTTGC
genomic: CGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 79

GGCGTCAGAAGATTATGTTTGCCCTAACCTCCATCAAGGGAGTCGGGCGTCGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaat ... tcacgtgcagGGCCGGCGAGCTTTCCGCAGCAGAGCTGGAGAACTTAATGGTGATAGTTGCTAACCCTCGCCAGTTCAAGATTCCAGATTGGTTCTTGAACAGGAAAAAA




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCGTCAGAAGATTATGTTTGCCCTAACCTCCATCAAGGGAGTCGGGCGTCGTTTTGCTAACTTGGTGTGCAAGAAGGCTGACGTCGACATGAGCAAGAGgtgcgcgaatctcttcgtcttgagctctttgtttctcctcttgaaaattttgatgtgtgtgggtactttccagatcctaacgcttagattacatggtatc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA