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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtgcgcacacgcgcgcatcagcgatcctcgaccaattttactctctctctctctctctgatgcttaaccaatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC

Basic information

species Oryza sativa
transcript LOC_Os04g38600.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G039723_T01 (Zea mays), 3'ss of exon 3
gtacgtgcgcacacgcgcgcatcagcgatcctcgaccaattttactctctctctctctctctgatgcttaaccaatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC
|| ||||| |     ||| ||    | | |    ||||    ||    | |   |   |||    |        | |     |||||||||||||||||| || |||||||||||||||| ||||||| |||||||||||||||| |||||||||||||| ||||| || ||||| || || || ||
gtgcgtgc-cttcttcgctcaaactcaaactcaaaccatacgtaacggcgcatgcatactcatccgtcaccgtcaccgccaccgcagGCATCATCAAGGGCACCATGACCACCACCCACTTCTACACCTGCGACCAGAGGCTGCTGGACGCGAGCCACCGCGACCTGCGCCGCGCCCGCGCCGCCGC

upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G162845_T01 (Zea mays), 3'ss of exon 3
gtacgtgcgcacacgcgcgcatcagcgatcctcgaccaattttactctctctctctctctctgatgcttaaccaatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC
||  |||| |     ||| ||    | | |    ||||    ||    | |   |   |||    |        | |     |||||||||||||||||| || |||||||||||||||| ||||||| |||||||||||||||| |||||||||||||| ||||| || ||||| || || || ||
gtgagtgc-cttcttcgctcaaactcaaactcaaaccatacgtaacggcgcatgcatactcatccgtcaccgtcaccgccatcgcagGCATCATCAAGGGCACCATGACCACCACCCACTTCTACACCTGCGACCAGAGGCTGCTGGACGCGAGCCACCGCGACCTGCGCCGCGCCCGCGCCGCCGC

upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM5G821433_T01 (Zea mays), 3'ss of exon 2
gtacgtgcgcacacgcgcgcatcagcgatcctcgaccaattttactctctctctctctctctgatgcttaaccaatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC
|| ||||| |     ||| ||    | | ||      ||     |   |   |||   |      |        | |     |||||||||||||||||| || |||||||||||||||| ||||||| |||| ||||||||||| |||||||||||||| ||||| || ||||| || || || ||
gtgcgtgc-cttcttcgctcaaactcaaaccatacgtaacggcgcatgcatactcatccgtcaccgtc------accgccaccgcagGCATCATCAAGGGCACCATGACCACCACCCACTTCTACACCTGCGATCAGAGGCTGCTGGACGCGAGCCACCGCGACCTGCGCCGCGCCCGCGCCGCCGC

upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA19G28240.1 (Glycine max), 3'ss of exon 4
----------gtacgtgcgca-cacgcgcgcatcagcgatcctcgaccaa--ttttactctctctctctctctctgatgcttaac--caatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC
           || |   |||  |   | |  | |   ||        ||  |  || |||||      |   |  |||   ||   ||||| |||   |||| ||||||||||| || ||||||||||| |||||||||||||| ||||| ||||| || || |||||||||||||||||  |||| ||  | || || ||
ctaaaatgacttatgcatgcaatatttgagactaatttatgtgaagaaaagatcatattctctactatgcatgccaatggaaaatgacaatccatga--cagGTATCATCAAGGGTACCATGACCACCACTCACTCCTACACCGGTGACCAAAGGCTTCTTGATGCGAGCCACCGTGACCTGAGGCGTGCAAGGGCAGCAGC

upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA16G04940.1 (Glycine max), 3'ss of exon 4
-----------gtacgtgcgcacacgcgcgcatcagcgatcctcgaccaattttactctctctctctctctctgatg----cttaaccaatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC
            ||    |  |   |   |  |    | |         || ||| |||||      |   |  ||     || |  ||||| |||   |||| ||||||||||| || ||||||||||| |||||||||||||||||||| ||||| |||||||||||||||||||||||  |||||||  | ||||| ||
ggaatacaatattagagactaaagtgaaggtttacatgttttaaagatcatattattctctactatgcatgccaatagaaactcacacaatccatga--cagGTATCATCAAGGGCACCATGACCACCACTCACTCCTACACCGGCGACCAAAGGCTTCTCGACGCGAGCCACCGTGACCTGAGGCGCGCCAGGGCGGCAGC

upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv01s0150g00500.t01 (Vitis vinifera), 3'ss of exon 4
-------gtacgtgcgcacacgcgcgcatcagcgatcctcgac--caattttactctctctctctctctctgatgcttaac--caatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC
        |     |   ||    | ||      |||||  |   |||| |     ||    |||   | |||   | ||      || ||     ||| ||||| ||||| || ||||||||||| ||||| ||||| ||||||||||| ||  | || || |||||||| | |||| |||  | |||||| || | 
gtaattcatcaaatcattcatttactcaatttaaatcctataatacaatatacaaatcatcatcttcatatgaatatcaatggtgttccatatgatagGAATCATAAAGGGTACAATGACCACCACTCACTCTTACACTGGCGACCAGAGACTTTTTGATGCAAGCCACCGGGTCCTCAGGCCTGTGCGTGCTGCTGT

upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv14s0068g00680.t01 (Vitis vinifera), 3'ss of exon 4
gtacgtgcgcacacgcgcgcatcagcgatcctcgacca-attttactctctctctctctctctgatgcttaaccaatcaatggcg-cagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC
          |||  | |   ||  |  |     ||||   | | | |||  || || |   |||||       ||  | |   | |||| ||||||||||| || ||||| || || || |||||||| || ||||||||||| || ||||| ||||||||||||||  | || ||| | || || ||
--gtaattttacatacccctttcgtctgtttgtcaccatggtcttccctccatcgctttgaatgatgggagcttaaaaattcatggcagGAATCATCAAGGGCACCATGACAACAACTCATTCCTACACTGGGGACCAGAGGCTCCTTGACGCCAGCCACCGTGACCTTAGACGTGCGAGAGCTGCAGC

upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: EDP09609 (Chlamydomonas reinhardtii), 3'ss of exon 4
----------------------------------------------------------------------------------------------------gtacgtgcgcacacgcgcgcatcagcgatcctcgaccaattttactctctctctctctctctgatgcttaacc-aatcaatggcgcag-
                                                                                                    | |  |     |  |   || ||| |  ||   ||||        || |  |  | |||||   ||| || || |     ||| ||||       ||||  ||||||| ||||||||||||||||||||||||||||| |||||| | ||||| ||||||  |||||| ||||| |                   
gtaaggaagcttacgcatgttgcttgctgtggctttttcgtcaggaataaatgcggggggcggcaagagcgtccacggtgttgcgggtccgagtgccctgggatatcttgtcttgtcagc-tcacctgtctctgacccggccc-ttcccctttcccctctcccttgcctaccccagGTGCTGGAGCAGAAGTTCGGCATTGTCAAGGGCACGATGACCACCACCCACTCCTACACCGGTGACCAGCGCCTGCTGGACGCGTCCCACCGCGACCTGC-------------------

upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: PP1S11_397V6.2 (Physcomitrella patens), 3'ss of exon 3
--gtacgtgcgcacacgcgcgcatcagcgat-cctcgacca-attttactctctctctctctctctgatgcttaaccaatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC-----------
   || |  | |  ||||   ||| ||| |  |||||  || |    |||  ||  ||| ||   | | | |        | |       || ||||||||||| || |||||||| |||||||||||||| || ||||||||||||||||| ||   |||||||||| |  || | |||||||| || ||           
ctataagcactcggacgctatcattagcaacgcctcgtgcacaaccaactgccttgctcccttcgtcaaggt--gttggacgagaagttcggaatcatcaagGGAACCATGACCACTACCCACTCCTACACTGGTGACCAGAGGCTGCTCGATGCCTCCCACCGTGACTTGAGGAGAGCGCGTGCCGCAGCCCTGAACATTG

upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: PP1S11_397V6.3 (Physcomitrella patens), 3'ss of exon 3
--------------------------------gtacgtgcgcacacgcgcgcatcagcgat-cctcgacca-attttactctctctctctctctctgatgcttaaccaatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC
                                 || |  | |  ||||   ||| ||| |  |||||  || |    |||  ||  ||| ||   | | | |        | |       || ||||||||||| || |||||||| |||||||||||||| || ||||||||||||||||| ||   |||||||||| |                     
caccttcgttgtgggtgtgaacgagcaggactataagcactcggacgctatcattagcaacgcctcgtgcacaaccaactgccttgctcccttcgtcaagGT--GTTGGACGAGAAGTTCGGAATCATCAAGGGAACCATGACCACTACCCACTCCTACACTGGTGACCAGAGGCTGCTCGATGCCTCCCACCGTGACTTGA-------------------

upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: EFJ29227 (Selaginella moellendorffii), 3'ss of exon 4
gtacgtgcgcacacgcgcgcatcagcgatcctcgaccaattttactctctctctctctctctgatgcttaaccaatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC
                     | ||   ||||| |  |  |   |||||||  ||  |    ||  ||    |||         |||| ||||||||||| || ||||| || || ||||| || ||||| |||||| | ||||||||||| |||||||| |||||||| || || || || |||||
--------------------gtaagt--tcctccaaaagct---ctctctcgatcgatgctagaaactcttgcaact-----tccagGGATCATCAAGGGAACCATGACAACAACACACTCGTATACCGGAGACCAGCGCCTGCTCGACGCCAGCCACCGGGACCTCCGCCGAGCTCGCGCCGCGGC

upper sequence: LOC_Os04g38600.2 (Oryza sativa), 3'ss of exon 3
lower sequence: EFJ13677 (Selaginella moellendorffii), 3'ss of exon 4
gtacgtgcgcacacgcgcgcatcagcgatcctcgaccaattttactctctctctctctctctgatgcttaaccaatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC
                     | ||   ||||| |  |  |   |||||||  ||  |    ||  ||    |||         |||| ||||||||||| || ||||| || || ||||| |||||||| |||||| | ||||||||||| |||||||| |||||||| || || || || |||||
--------------------gtaagt--tcctccaaaagct---ctctctcgatcgatgctagaaactcttgcaact-----tccagGGATCATCAAGGGAACCATGACAACAACACACTCGTACACCGGAGACCAGCGCCTGCTCGACGCCAGCCACCGGGACCTCCGCCGAGCTCGCGCCGCGGC

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|33798747|gb|CF325231.1|CF325231
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|29617640|gb|CB622652.1|CB622652
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGA
EST: gi|38480050|gb|CF964139.1|CF964139
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|8955782|gb|BE229587.1|BE229587
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|11442572|gb|BF430475.1|BF430475
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|38483060|gb|CF966862.1|CF966862
EST:     CACCACCAACTGGCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|2801090|gb|AA754384.1|AA754384
EST:     CACCACCAACTGCCTCGCCCC-TTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGRTGACCACCACC-AMTTCCTAMACCGGCGACCAG
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACT-CCTACACCGGCGACCAG
EST: gi|38480735|gb|CF964824.1|CF964824
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|55409782|gb|CV722158.1|CV722158
EST:     AACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: AACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|29686089|gb|CB682364.1|CB682364
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCAC
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCAC
EST: gi|38470150|gb|CF954281.1|CF954281
EST:     CACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|88453829|gb|CI686209.1|CI686209
EST:     TGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACNA-CGGCGACCAG
genomic: TGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTAC-ACCGGCGACCAG
EST: gi|29659934|gb|CB656209.1|CB656209
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|117243480|gb|CT843086.1|CT843086
EST:     CACCACCA-CTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCC                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|38472291|gb|CF956422.1|CF956422
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCAACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|58610781|gb|CK038493.1|CK038493
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|38472095|gb|CF956226.1|CF956226
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|38481312|gb|CF965401.1|CF965401
EST:     CACCAGCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGA
EST: gi|29621548|gb|CB626559.1|CB626559
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAATTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGA
EST: gi|29684768|gb|CB681043.1|CB681043
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|38480302|gb|CF964391.1|CF964391
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACGTCCTACACCGGCGACCAG
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCAC-TCCTACACCGGCGACCAG
EST: gi|8956244|gb|BE230048.1|BE230048
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|29615596|gb|CB620608.1|CB620608
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|38475496|gb|CF959629.1|CF959629
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAGGGGGACGATGACCAGCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|38470181|gb|CF954312.1|CF954312
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|38468816|gb|CF952947.1|CF952947
EST:     CTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|33798797|gb|CF325256.1|CF325256
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|33676749|gb|CF304988.1|CF304988
EST:     CAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|25802773|gb|CA758734.1|CA758734
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|58682595|gb|CK071282.1|CK071282
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|8956278|gb|BE230082.1|BE230082
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGA
EST: gi|38477175|gb|CF961308.1|CF961308
EST:     CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCG                         GCATCATCAAGGGGACGATG
genomic: CACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATG

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: 75 (upstream exon), 75 (downstream exon)
Score: 471

AATGCCGACCAGTACAGCCCCGACGAGCCCATCATCAGCAACGCCTCCTGCACCACCAACTGCCTCGCCCCCTTCGTGAAGATCCTCGACCAGAAGTTCGgtacgtgcgc ... aatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgaccaattttactctctctctctctctctgatgcttaaccaatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC
                                 gcttaac  putative branch site (score: 471)
     aattttact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgtgcgcacacgcgcgcatcagcgatcctcgaccaattttactctctctctctctctctgatgcttaaccaatcaatggcgcagGCATCATCAAGGGGACGATGACCACCACCCACTCCTACACCGGCGACCAGAGGCTGCTCGACGCGAGCCACCGTGACCTCCGGCGCGCGCGTGCGGCGGC

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