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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacctctcctgcacgcctactgcactcattgtttcgtgtgcttcctttttctttttctcgaattgtatttgttgtgttgtttgacactcgattgtaaccctgcttgtgtcgtctcgatgccgaatctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAGAAGTTCACCTTCCGAGGAGTGGATCTAGATGCTCTCCTTGACATGAGCA

Basic information

species Physcomitrella patens
transcript PP1S13_413V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S13_413V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA08G04690.2 (Glycine max), 3'ss of exon 1
gtacctctcctgcacgcctactgcactcattgtttcgtgtgcttcctttttctttt--tctcgaattgtatttgttgtgttgt--ttgacactcgattgtaaccctgcttgtgtcgtctcgatgccgaatctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAGAAGTTCACCTTCCGAGGAGTGGATCTAGATGCTCTCCTTGACATGAGCA
                                    ||| | || | || ||   |    | ||    || ||  |||||||   || |   |   |  |   |    |    |    | |  | |  |  |    |  |  |   || || | ||  |  |  |  | ||| |||||||||||||| ||||||||||  || ||||| |||||||| ||||| |               
------------------------------------gtgagttttccttctccgatgacattgacgcctaatttctgtgttgctgtttatgttttctgatggtctcaatgaattgcatttgcagGCAGACGTTGAAGTCGATGTG-GCGGCAGCAGCAGCAGCAGGGCTGCCGAAGAAGAGAACGTTCAAGAAGTTCAGTTTTCGAGGCGTGGATCTCGATGCAC---------------

upper sequence: PP1S13_413V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv07s0141g00710.t01 (Vitis vinifera), 3'ss of exon 1
--------------------gtacctctcctgcacgcctactgcactcattgtttcgtgtgcttcctttttctttttctcgaattgtatttgttgtgttgtttgacactcgattgtaaccctgc----ttgtgtcgtctcgatgccgaatctcatggcagGCGGACGCTG---CCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAGAAGTTCACCTTCCGAGGAGTGGATCTAGATGCTCTCCTTGACATGAGCA
                     |     |  || |   || |   |            | |  |   |||| ||||  || |  || | |||   | |        |     ||||||   ||||    || |  ||  |   |    |  |   |  ||||||||    |   |||| ||||     |     || ||||||||||| || |||||||||| |||| ||||||| ||| | ||||||||  | || |||    
gtaagaccttgaattcaaaaatgaacatgatgaatttcttcgagaaaatgaagccattcttttagattttcctttcacttgccttcttttttccgagaatcaaaccgaatcattgtattgctgcaggattctcacggtttttttttaatccgtttttcagGCGGATATCGAAACCGATGTTGCTCCAGGGGTTCCGAAGAAGAGAACATTCAAGAAGTTCAGCTTCAGAGGAGTTGATTTGGATGCTCTTTTGGATATGT---
















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|67720135|gb|BJ970394.1|BJ970394
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67726550|gb|BJ976809.1|BJ976809
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67573461|gb|BJ946285.1|BJ946285
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|18367386|gb|BJ199469.1|BJ199469
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|162246076|gb|FC423564.1|FC423564
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67703141|gb|BJ963374.1|BJ963374
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|162256576|gb|FC432886.1|FC432886
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|162236134|gb|FC411123.1|FC411123
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|18369431|gb|BJ201518.1|BJ201518
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACGCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|37843047|gb|BJ601055.1|BJ601055
EST:     CCATTTGATCGCCGAGACCGTCGNTGCTNGTCTCCACCCCTTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAA
genomic: CCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCC-TCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAA
EST: gi|67701647|gb|BJ961880.1|BJ961880
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67725981|gb|BJ976240.1|BJ976240
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|162261836|gb|FC438360.1|FC438360
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|19787458|gb|BQ040628.1|BQ040628
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|162254398|gb|FC430533.1|FC430533
EST:     CCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|19789804|gb|BQ041523.1|BQ041523
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|18329053|gb|BJ161059.1|BJ161059
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|15728290|gb|BI740713.1|BI740713
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67719739|gb|BJ969998.1|BJ969998
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|7067117|gb|AW496972.1|AW496972
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67717464|gb|BJ967723.1|BJ967723
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67702344|gb|BJ962577.1|BJ962577
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67728006|gb|BJ978265.1|BJ978265
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67696842|gb|BJ957075.1|BJ957075
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|162267342|gb|FC442130.1|FC442130
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|6167149|gb|AW145413.1|AW145413
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67698541|gb|BJ958774.1|BJ958774
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67718053|gb|BJ968312.1|BJ968312
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|18375139|gb|BJ206717.1|BJ206717
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|208398737|gb|DC916260.1|DC916260
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|18325325|gb|BJ157321.1|BJ157321
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|162205496|gb|FC381594.1|FC381594
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|37851084|gb|BJ609092.1|BJ609092
EST:     CCCATTTGATCGCCGAGACCGTCGNTGNTNGTCTCCACGCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67704710|gb|BJ964943.1|BJ964943
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|7047342|gb|AW477236.1|AW477236
EST:     CCATTTGATCGCCGAGACCGTCGGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCATTTGATCGCCGAGACCGTC-GCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|208356889|gb|DC902385.1|DC902385
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|18337255|gb|BJ169279.1|BJ169279
EST:     GTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: GTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67724054|gb|BJ974313.1|BJ974313
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|162254399|gb|FC430534.1|FC430534
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67575089|gb|BJ947913.1|BJ947913
EST:     CCCNTTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|162275442|gb|FC451821.1|FC451821
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
EST: gi|67709976|gb|BJ965792.1|BJ965792
EST:     CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATG                         GCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG
genomic: CCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAG

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: 32 (upstream exon), 35 (downstream exon)
Score: 70

TGGAGTCTGTTGCTCCCTCTTTCGCCATCGAGCCGGGTCGTAGTTCTCCCCATTTGATCGCCGAGACCGTCGCTGCTCGTCTCCACCCCTCCACCATGgtacctctcc ... ctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAGAAGTTCACCTTCCGAGGAGTGGATCTAGATGCTCTCCTTGACATGAGCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgacactcgattgtaaccctgcttgtgtcgtctcgatgccgaatctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAGAAGTTCACCTTCCGAGGAGTGGATCTAGATGCTCTCCTTGACATGAGCA
           ttgtaac  putative branch site (score: 70)
          attgtaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacctctcctgcacgcctactgcactcattgtttcgtgtgcttcctttttctttttctcgaattgtatttgttgtgttgtttgacactcgattgtaaccctgcttgtgtcgtctcgatgccgaatctcatggcagGCGGACGCTGCCGAAGTTGAGGTTGCACAGCCCAAGAAGAGAACGTTTAAGAAGTTCACCTTCCGAGGAGTGGATCTAGATGCTCTCCTTGACATGAGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA