Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagtatttgtatgaagtacttcataagcacctagctttttattatagtggagcttttgtctaagtataaccttgttgacctggccgtattgatcatgtgcacttacatcatcatctgaaacttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTGAAGGAGCCTGAGCGGGACAGGAAGAAGGTCAAGAACATCAAGCACAATG

Basic information

species Physcomitrella patens
transcript PP1S78_212V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S78_212V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G135050_T01 (Zea mays), 3'ss of exon 1
--------------gtacagtatttgtatgaagtacttcataagcacctagctttttattat-agtggagcttttgtctaagtataaccttgttgacctggccgtattgatcatgtgcacttacatca---tcatctgaaacttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTGAAGGAGCCTGAGCGGGACAGGAAGAAGGTCAAGAACATCAAGCACAATG
              ||           | ||    |    |  |   ||  |     |  ||  |||  |   | | | | |   ||     | | |  || |     |  | |  ||     | |||   ||| |    |   |  | ||||||||||  | ||| | |||   || || || || || |||||||| || ||||| |  ||| |||||||||||||||||||||||||||||||||  |
gtcggcgtgacgtcgtcgctggcccccaagatcggcccgctcggtctctccccgaagaagattggtgaggacatcgccaaggcccaaggagatcgccaaggactggaagggcctccgcgtcaccgtcaagctcaccgtgcagaaccggtagGCCAAGGTCTCCGTCATCCCCTCCGCCGCGGCGCTCGTCATCAAGGCGCTCAAGGAACTCGAGAGGGACAGGAAGAAGGTCAAGAACATCAAGCACAGCG
















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|162253508|gb|FC429531.1|FC429531
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67725788|gb|BJ976047.1|BJ976047
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|37846381|gb|BJ604389.1|BJ604389
EST:     ACTGGAAGGGTCTGNGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGNTGCTGCCCTTGTGATCAAGGCTNTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67703147|gb|BJ963380.1|BJ963380
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162260348|gb|FC436795.1|FC436795
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18343832|gb|BJ175870.1|BJ175870
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67694997|gb|BJ955230.1|BJ955230
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|37830865|gb|BJ588877.1|BJ588877
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|208347333|gb|DC925329.1|DC925329
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67569382|gb|BJ942206.1|BJ942206
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162246194|gb|FC423604.1|FC423604
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18367136|gb|BJ199217.1|BJ199217
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18325496|gb|BJ157493.1|BJ157493
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67692643|gb|BJ952876.1|BJ952876
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67571642|gb|BJ944466.1|BJ944466
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18365926|gb|BJ198004.1|BJ198004
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18360551|gb|BJ192614.1|BJ192614
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162247271|gb|FC423069.1|FC423069
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18367240|gb|BJ199321.1|BJ199321
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67697742|gb|BJ957975.1|BJ957975
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162262194|gb|FC437105.1|FC437105
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162235136|gb|FC412064.1|FC412064
EST:     CTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: CTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67712752|gb|BJ966201.1|BJ966201
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162223616|gb|FC399727.1|FC399727
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67724463|gb|BJ974722.1|BJ974722
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67721654|gb|BJ971913.1|BJ971913
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18363915|gb|BJ195987.1|BJ195987
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162253507|gb|FC429530.1|FC429530
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162235786|gb|FC411089.1|FC411089
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162245626|gb|FC424141.1|FC424141
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18341187|gb|BJ173220.1|BJ173220
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|19784344|gb|BQ040161.1|BQ040161
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|19788695|gb|BQ040862.1|BQ040862
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|208352105|gb|DC901668.1|DC901668
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|37847703|gb|BJ605711.1|BJ605711
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162206037|gb|FC382822.1|FC382822
EST:     ACTGGAAGGGTTTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18333456|gb|BJ165471.1|BJ165471
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162202321|gb|FC379160.1|FC379160
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|208381633|gb|DC915499.1|DC915499
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162206038|gb|FC382823.1|FC382823
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67704328|gb|BJ964561.1|BJ964561
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162247270|gb|FC423068.1|FC423068
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162260349|gb|FC436796.1|FC436796
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67574332|gb|BJ947156.1|BJ947156
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|37823022|gb|BJ581088.1|BJ581088
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162245627|gb|FC424142.1|FC424142
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162206756|gb|FC383229.1|FC383229
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|67717272|gb|BJ967531.1|BJ967531
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162215570|gb|FC391350.1|FC391350
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18331264|gb|BJ163273.1|BJ163273
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|37841077|gb|BJ599085.1|BJ599085
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162229776|gb|FC405178.1|FC405178
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|37847590|gb|BJ605598.1|BJ605598
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18328688|gb|BJ160693.1|BJ160693
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162202322|gb|FC379161.1|FC379161
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162252642|gb|FC428673.1|FC428673
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162218874|gb|FC394417.1|FC394417
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|208383881|gb|DC911535.1|DC911535
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162261898|gb|FC438422.1|FC438422
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162258080|gb|FC434174.1|FC434174
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18336906|gb|BJ168929.1|BJ168929
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|7583738|gb|AW699644.1|AW699644
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|18340347|gb|BJ172375.1|BJ172375
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
EST: gi|162223615|gb|FC399726.1|FC399726
EST:     ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAG                         GCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG
genomic: ACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTG

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: 92

TTTGTCACCCAAGAAGGTCGGTGAGGATATTGCCAAGGAGACCGCTAGAGACTGGAAGGGTCTGCGAGTGACAGTCAAGCTCACTGTGCAGAATCGTCAGgtacagtatt ... cttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTGAAGGAGCCTGAGCGGGACAGGAAGAAGGTCAAGAACATCAAGCACAATG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgacctggccgtattgatcatgtgcacttacatcatcatctgaaacttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTGAAGGAGCCTGAGCGGGACAGGAAGAAGGTCAAGAACATCAAGCACAATG
                        cacttac  putative branch site (score: 92)
           tattgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacagtatttgtatgaagtacttcataagcacctagctttttattatagtggagcttttgtctaagtataaccttgttgacctggccgtattgatcatgtgcacttacatcatcatctgaaacttcatgcagGCCAAGGTTGCAGTCGTTCCCAGTGCTGCTGCCCTTGTGATCAAGGCTCTGAAGGAGCCTGAGCGGGACAGGAAGAAGGTCAAGAACATCAAGCACAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC