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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataatgtgtattctaattatgcatactttcaccag

Basic information

species Oryza sativa
transcript LOC_Os01g19150.5
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA02G01220.2 (Glycine max), 5'ss of exon 10
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataatgtgtattctaattatgcatactttcaccag
||  | || || || |||||||||||||||||   ||||||||| || ||||| ||||| || || || ||||| |||||||| |||||||| ||||||      |  |   |||| ||   |     ||||       | || | || |   |  |||| ||| ||   ||  |  ||| | |                   
GTTTTAGGAACCCCGACAAGGGAAGAAATCAAGTGTATGAATCCTAATTACACCGAGTTCAAATTTCCACAAATTAAAGCTCATCCATGGCATAAGgta-----ttgtaatgttatatttgcctgtccatttatg----tgatatttcat-tgtgatattcatatatatgaaccttcattatcag------------------

upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA10G01280.2 (Glycine max), 5'ss of exon 10
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataatgtgtattctaattatgcatactttcaccag
||  | ||||| ||||||||||||||||||||    |||||||| || || || ||||  || || || ||||| ||||||||||||||||||||||||  |    | |  ||  |||||    ||| |||| ||  |||| |   |  || |    || |||| || |   |   | |||                      
GTTTTAGGTACCCCAACAAGGGAAGAAATCAAGTGCATGAATCCTAATTATACCGAGTCCAAATTTCCACAAATTAAAGCTCACCCATGGCACAAGgtatta----taatgttatttttgcatgtct-atttacat-gttatttcattatgatattcatatatatatgaaccttcatcttcag--------------------

upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv07s0005g02100.t01 (Vitis vinifera), 5'ss of exon 10
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataatgtgtattctaattatgcatactttcaccag
||  |||| || |||||||| || ||||| ||    |||||||| || ||||| || ||||| ||||| ||||| ||||| ||||||||||||||||||   |     | |   |   | || ||   ||| |    | || ||  || | |   ||    |  |||  | || |  ||||| ||| | | | || |||    
GTTTTGGGCACCCCAACAAGAGAGGAAATTAAGTGCATGAATCCCAATTACACAGAATTTAAATTCCCACAAATTAAAGCCCACCCATGGCACAAGgtactgga---tagaagcaggatattacttcaattct----gcta-tgcttcttacaacct---cacgaatattgattttcattcttattgtacctcctatcag---

upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: PP1S60_85V6.1 (Physcomitrella patens), 5'ss of exon 9
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtagg-agccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataat-gtgtattctaattatgcatactttcaccag
||  |||| || || ||  | || || || ||    ||||||||||||||||| ||||| ||||| || |||||||| |||||||| |||||||| ||| |  | |||      |    |||| |    || ||  |  ||  |   |   |   |  | |    |  ||  |  |||| |||   | |    |   ||      
GTGTTGGGAACACCGACTCGTGAGGAGATAAAGTGCATGAATCCGAACTACACGGAGTTCAAGTTTCCGCAAATCAAGGCTCACCCGTGGCACAAAgtatgtggtctttgtgaatgcactgtttcc---atcttgggctttggtag-tgtagtccagaagtggagatgtacgaccgtgttttcgtgtgagcggtgggttt-----

upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: PP1S60_100V6.1 (Physcomitrella patens), 5'ss of exon 9
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtagg-agccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataatgtgtattctaattatgcatactttcaccag
||  |||| || || ||  | || || |||||    ||||||||||||||||| ||||| ||||| || |||||||| ||||||||||||||||| ||| |  | ||       |    ||||    | || ||  |  ||  |   |   |   |  | |    |  ||  |   || || |  |  ||    |  |      
GTGTTGGGGACACCGACTCGTGAGGAGATCAAGTGCATGAATCCGAACTACACGGAGTTCAAGTTTCCGCAAATCAAGGCTCACCCATGGCACAAAgtatgtggtctgtgtgaatgcactgttt---tcatcttgggctttggtag-tgtagtccagaagtggagatgtacgac-cgtgttttcgt-gtgtgagcggtgggt--

upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: PP1S74_168V6.1 (Physcomitrella patens), 5'ss of exon 8
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataatgtgtattc-taattatgcatactttcaccag
||  |||| || || ||| | || || || ||    ||||||||||||||||| ||||| ||||| || ||||| || ||||| || |||||||||||| |     ||    |  |  || ||   |    | |   |   ||||    |      |  ||  |||   | |  ||||||| |||| | |   | |        
GTGTTGGGGACACCCACACGCGAGGAGATAAAGTGCATGAATCCGAACTACACGGAGTTCAAGTTTCCTCAAATTAAGGCTCATCCTTGGCACAAGgtacggctggtctgtgtgttagtggtctggtatggtgctttggagatgtactgtaacagttgattggaaagcgttacctgtattcataataacggtgatt--------

upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: PP1S52_55V6.1 (Physcomitrella patens), 5'ss of exon 9
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagccttcacatttatttt-gttcctcttattttcagagttaatg-tctcctgcttactatttataaatt--ataatgtgtattctaattatgcatactttcac-cag-------------------------------------------------------------------------------
||  | || || || ||| | || || || ||    ||||||||||||||||| ||||| ||||| || ||||| || |||||||| |||||||||||| | |  |  |  |||   || | |  | ||| |     | |  ||  | |  |    | |||   |    |  ||| ||   ||| | | | ||  |  ||  || | |                                                                               
GTGTTAGGGACACCTACACGTGAGGAGATAAAGTGCATGAATCCGAACTACACGGAGTTCAAGTTTCCTCAAATTAAGGCTCACCCGTGGCACAAGgtatg-gtttgtatgtttgggttagctatttttagtggtctattatataatttgataggaattatccgtgtcctcgatattggtgattttgaatttggttggttggacgctgctactcgttgtgattgggagaatggagcgtgttgcattgaccttagcaacgtgcgaattgattggttctgtggtggcag

upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: PP1S306_62V6.1 (Physcomitrella patens), 5'ss of exon 8
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcctt---cacat-ttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaa---ttataatgt----gtatt-ctaattatgcatactttcaccag-------------------------------------------------------------
||  |||| || || ||  | || || |||||    ||||||||||||||||| ||||| ||||| || |||||||| || ||||| |||||||| ||| |    ||   |  ||  |||  |||    ||   | |    |||   ||    |  |   | |   | |    || |  |||    | |||  || ||  |       |     |                                                             
GTTTTGGGGACACCGACTCGTGAGGAGATCAAGTGCATGAATCCGAACTACACAGAGTTCAAGTTTCCACAAATCAAGGCGCACCCGTGGCACAAAgtatgttttttgtgcgaatgctatgatgtcatcctgggtgttgcggttgtagtgcggtagtggatgtgggtcagcctttctcgtgtagcggcattgttagttgcgtgcgtcgtggtttgttggatgttgggttttgacgacggtaaccggcgtttggtatggccgatgtgggaattgcag

upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ07923 (Selaginella moellendorffii), 5'ss of exon 10
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataatgtgtattctaattatgcatactttcaccag
||  | |||||||| ||  |||| |||||||||   |||||||| |||||||| |||||||||||||| || || ||||| || || |||||||||||| ||||  ||  ||    | | |  ||||   | ||    || ||||  |  | | ||                                               
GTCTTAGGTACTCCTACTCGGGAGGAAATCAAATGCATGAATCCAAACTACACGGAGTTTAAGTTCCCTCAGATTAAAGCGCATCCCTGGCACAAGgtaagagcaatc--atccggtatatctctctctctgtctctcttgatgtggctcgttgacag---------------------------------------------

upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ07216 (Selaginella moellendorffii), 5'ss of exon 10
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataatgtgtattctaattatgcatactttcaccag
||  | |||||||| ||  | || |||||||||   |||||||| |||||||| |||||||||||||| || || ||||| || || |||||||||||| ||||  ||  ||    | | |  ||||   | ||    || ||||  |  | | ||                                               
GTCTTAGGTACTCCTACTCGCGAGGAAATCAAATGCATGAATCCAAACTACACGGAGTTTAAGTTCCCTCAGATTAAAGCGCATCCCTGGCACAAGgtaagagcaatc--atccggtatatctctctctctgtctctcttgatgtggctcgttgacag---------------------------------------------

upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ04915 (Selaginella moellendorffii), 5'ss of exon 9
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataatgtgtattctaattatgcatactttcaccag
|| || || || || ||  | || || |||||   ||||||||| |||||||| || || |||||||| |||||||| || ||||| |||||||||||  |       || | | | |||   |  |  ||| |  ||| || ||  |                                                       
GTTCTTGGAACCCCTACTCGCGAGGAGATCAAGTGTATGAATCCCAACTACACGGAATTCAAGTTCCCTCAAATCAAGGCCCACCCTTGGCACAAGgtgcgtaggca-acttctttgttggggcggtcgtttacgtagt-aacgtggcag-----------------------------------------------------

upper sequence: LOC_Os01g19150.5 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ10962 (Selaginella moellendorffii), 5'ss of exon 9
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataatgtgtattctaattatgcatactttcaccag
|| || || || || ||  | || || |||||   ||||||||| |||||||| || || |||||||| |||||||| || || || |||||||||||  |       || | | | |||   |  |  ||| |  ||| || ||  |                                                       
GTTCTTGGAACCCCTACTCGCGAGGAGATCAAGTGTATGAATCCCAACTACACGGAATTCAAGTTCCCTCAAATCAAGGCCCATCCTTGGCACAAGgtgcgtaggca-acttctttgttggggcggtcgtttacgtagt-aacgtggcag-----------------------------------------------------

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|29670122|gb|CB666397.1|CB666397
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29628248|gb|CB633259.1|CB633259
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|33683226|gb|CF311465.1|CF311465
EST:     CTACACTGAGTTTAAGTTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: CTACACTGAGTTTAAGTT-CCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29668964|gb|CB665239.1|CB665239
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29668828|gb|CB665103.1|CB665103
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|8856575|gb|AU093893.1|AU093893
EST:     CTACACTGAGTTTAAG-TCCCCCAAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: CTACACTGAGTTTAAGTTCCCCC-AAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|58675098|gb|CK063785.1|CK063785
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29666430|gb|CB662705.1|CB662705
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29614478|gb|CB619491.1|CB619491
EST:     AGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: AGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29645803|gb|CB650810.1|CB650810
EST:     NCTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29676371|gb|CB672646.1|CB672646
EST:     TTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: TTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29666992|gb|CB663267.1|CB663267
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29666993|gb|CB663268.1|CB663268
EST:     AGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: AGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29628183|gb|CB633194.1|CB633194
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29666642|gb|CB662917.1|CB662917
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|218502361|gb|FG956952.1|FG956952
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAACGCTCACCCATGGCACAAG                         ATCTTTCATTAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29674068|gb|CB670343.1|CB670343
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29623354|gb|CB628365.1|CB628365
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
EST: gi|29668829|gb|CB665104.1|CB665104
EST:     ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAG                         ATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT
genomic: ACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTT

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: 62 (upstream exon), 64 (downstream exon)
Score: 47

GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagcct ... ctttcaccagATCTTTCATAAAAGAATGCCATCTGAAGCTGTAGATCTTGTGTCTCGGCTTCTGCAGTACTCACCACACCTCCGGTGCAGTGCA




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACTGGGTACTCCAACAAGGGAAGAAATCAAACATATGAATCCGAACTACACTGAGTTTAAGTTCCCCCAAATCAAAGCTCACCCATGGCACAAGgtaggagccttcacatttattttgttcctcttattttcagagttaatgtctcctgcttactatttataaattataatgtgtattctaattatgcatactttcaccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA