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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT

Basic information

species Oryza sativa
transcript LOC_Os06g37180.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G181151_T02 (Zea mays), 3'ss of exon 8
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaa-ggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                                                           | | ||      ||| ||    ||      |  || ||  |||     |||| | ||   |  |  | | | |||||||| |||||||    |  ||   |||||||| ||||||||||||||||||||||| ||||||||||| ||||| || ||||| |||||||||||||||||||||||||||||||| || ||||||||||
--------------------------------------------------------------------------ctatcctctggccctgcataacgatgagccaaatatattctacatg---tgacataatcagtgtatagcacagcatatttt-taacacc---ttgatcctcttacagGCTAATGATCCCACCATTGAACGTATTATCACCCCTCGGATTGCTCTAACAACAGCAGAATATTTGGCATATGAATGTGGGAAGCATGTACTTGTCATCT

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G094497_T01 (Zea mays), 3'ss of exon 8
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaa-ggtagaacatattttcta-acaccaggctactctgttt-acagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                                                                    |      ||  | ||      ||||||||   |  || ||||| | |||  |  |   || | ||||||||  | ||  ||     |||||||| |||||| || || ||||||||||||||||| ||||||||||| ||||| || ||||| || ||||||||||||||||||||||||||||| || ||||| ||||
--------------------------------------------------------------------------------cccctgcacacataatcatgagccaatcatttt---ctaaatttgacataattagtgtataatacagcatatttttaacacctcaattctctctgttttacagGCTAACGACCCCACCATTGAACGTATTATCACCCCTCGGATTGCTCTAACAACAGCGGAATATTTGGCATATGAATGTGGGAAGCATGTACTTGTTATCT

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA10G42940.1 (Glycine max), 3'ss of exon 8
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgt-ttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                                                              ||  | |||   |  || | | |      |    ||    |||||  | || ||   ||||            || ||||    |   |    | |  | |||||||||||||| || ||||||||||| ||||| ||||| ||||| || || ||||| ||||||||||| ||||||||||| ||||| || ||||| ||  
---------------------------------------------------------------------------aaagcaaaatttaaatgaggctttttgatttcctgacttgcatgaagt--agctaatccctaaaa----tgttctcttgctaatgtgaatatgtgatttactgcagGCAAATGATCCTACAATTGAACGTATTATCACTCCTCGTATTGCTCTTACTACTGCTGAATATTTGGCTTATGAATGTGGCAAGCATGTTCTTGTGATAC

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA18G48280.1 (Glycine max), 3'ss of exon 8
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgct-tattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT-
                                                                    ||| ||      | |  | | || |   || |   | ||| |  | ||   ||||  || |||||  |||||     | | | | |  |    |   | |    |  ||||||||||||||||| || ||||| ||||||||||| ||||| ||||| || || ||||| ||||||||||||||||||||||| ||||| || ||||| ||   
--------------------------------------------------------------------gtggatgatcattgtgctatttgca-aattttgatttcatgacctgtat--gaag--gagctgatcattaaa-----atcctgtctcttgttgctgtgat----ttattacaggCAAATGATCCTACGATTGAGCGTATCATCACTCCTCGTATTGCTCTTACTACTGCTGAATATTTGGCATATGAATGTGGCAAGCATGTTCTTGTGATACT

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA09G38110.2 (Glycine max), 3'ss of exon 8
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                                               ||    |    ||    ||||||||       || |   | ||| |  | ||   ||||  || |||||  |||||  |      | | || |    |   | | |     ||| ||||||||||||| || ||||| ||||||||||| ||||| ||||| || || ||||| ||||||||||||||||||||||| ||||| || ||||| ||  
---------------------------------------------------------------tgtggattatcattgtgttattttcaa----attttgatttcatgacctgta--tgaag--gaactgatcattaaaattc-----tctcttttgttgctgtgattca----ttatagGCAAATGATCCTACAATTGAGCGTATCATCACTCCTCGTATTGCTCTTACTACTGCTGAATATTTGGCATATGAATGTGGCAAGCATGTTCTTGTGATAC

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GLYMA20G24070.1 (Glycine max), 3'ss of exon 9
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgt-ttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                                                              ||  | |||   |  || | | |      |    ||    ||||  || || ||   ||||            || ||||    |   |    | |  | |||||||||||||| || ||||| ||||| ||||| ||||| ||||| || || ||||| ||||||||||| ||||||||||| |||||||| ||||| ||  
---------------------------------------------------------------------------aaagcaaaatttaaatgaggctttttgatttcctgacttgcatgaag--gagctaatccctaaaa----tgttctcttgctaatgtgaatatgtgatttactgcagGCAAATGATCCTACAATTGAGCGTATTATCACTCCTCGTATTGCTCTTACTACTGCTGAATATTTGGCTTATGAATGTGGCAAGCACGTTCTTGTGATAC

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: AT4G38510.4 (Arabidopsis thaliana), 3'ss of exon 9
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                                                                  | | ||   ||     || |  ||||  ||  | || |  ||      | ||||       |||  | | |        ||  ||  | |    ||||||||| || ||||| ||||| ||||||||||| ||||| || ||||| |||||||| || || ||||||||||||||||| ||||| || ||||||||  
-------------------------------------------------------------------------------gcaagtctcgcaatcacactacagacatc--ttgaagcaaattttagttccaatgtttt--tctgaaggtttct--------cattctgttttccgcacagGCAAACGACCCCACTATTGAGCGTATCATCACTCCTCGTATCGCACTTACAACTGCTGAGTACTTGGCATATGAATGTGGCAAGCATGTCCTTGTCATTC

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 3'ss of exon 8
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgta--tggttat-atatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                                                           |    ||   |||| ||  || ||   ||||     | ||||  ||    || |  || || |||    || |||| ||||   |||       || ||     |||||| ||||| || ||||||||  | |||||||| ||||||||||| || ||||| || |||||| |||| |||||||||||||| ||||| ||||| || |
--------------------------------------------------------------------------gtaaatttgacttctatagctgattgccatatcatggagttttttcaagtatttagatgtttcttagcttta-aacagattt---aaccttcctttattcca---acagGCCAATGACCCAACCATTGAGAGAATCATCACTCCTCGAATTGCCCTCACAACAGCTGAATATCTGGCTTATGAATGTGGGAAACACGTCCTTGTTATAT

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: AT1G20260.1 (Arabidopsis thaliana), 3'ss of exon 8
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaatt--ctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgt-taaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                                    | || | | |   | |||||       | ||  |  | | |||| ||  |      | | || |   || | |  | |  ||| | | |  |  |||   |  || | |  | |  | ||||     |||||| |||||||| ||||||||  | || ||||| ||||||||||| || ||||| || ||||||||||| ||||||||||| ||||| |||||||| || |
----------------------------------------------------gtaatttactagttactagtac-----tactagtaatttctatgcttcca---atcttacttcttgtagtact--atcatattatatcagtgaggaattgaccttattatgc-attccactcga---acagGCCAATGATCCAACCATTGAGAGAATTATCACTCCTCGAATTGCCCTAACAACCGCTGAATATTTGGCTTATGAATGTGGAAAGCATGTGCTTGTTATAT

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv18s0001g01020.t01 (Vitis vinifera), 3'ss of exon 8
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                          ||      |   || | | |||  ||   ||  | || |    ||  | ||| |          ||||||       | | ||   |  || ||  |        ||||||   |  |   ||||  | ||   |||||| |||||||||||||| ||||| || ||||| ||||||||||| || |||||||||||||||||||| ||||| ||||||||||| || || || || |
------------------------------------------gtatcaattaataatttaatctcttatcctaattatgttg---tttaggatgatctctctcatttcatttaggtggaagggtgttttttttctttta--------atatttgtaatgatgtggctcttttg--cacagGCCAATGATCCCACCATAGAACGCATTATCACTCCTCGAATTGCTCTCACAACTGCAGAATATTTGGCTTATGAGTGTGGGAAGCATGTTCTAGTTATAT

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: Vv03s0038g02760.t01 (Vitis vinifera), 3'ss of exon 8
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttatt-ttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                               | ||  | | ||| |    || | ||   ||  ||||| || | | ||||  || || |   ||||| |||     || |    || |||   ||      ||| ||||| | |    |||     ||  |||||| || || |||||||||||||| |||||||| ||||||||||| || || ||||| |||||||| |||||||||||||| || || || ||||||||  
-----------------------------------------------gtatttatattaaat----taatatagtggtatttattattgtttgtggt-gtaaattctaaattttaaaccaggcttca--gaatagtt---ggctttgaatagtttctgatat---gct--caagtggacagGCCAACGACCCCACCATTGAACGCATCATCACTCCTCGAATTGCTCTCACCACTGCTGAATATTTAGCATATGAATGTGGCAAACATGTTCTTGTCATAC

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 3'ss of exon 7
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                                                   | |  || |      |||  || | |  || |    | |  |||| |     ||||           ||| |  |||||  ||  ||| ||   |    |  |  | || ||||| |||||||| || |||||||| || ||||| |||||||| || || || ||||| ||||| |  || ||||||||||||||||| || || |||||| 
------------------------------------------------------------------aaatcaatgttcttccattccctctttctttttcctcgaacaatttctgtggtaagtc----------ttatatttagaatttaagttcgaatctc----tcttgggcttgcagGCTAATGATCCAACGATTGAACGGATTATCACTCCTCGAATCGCCCTTACTACTGCTGAATACTACGCTTATGAATGTGGGAAGCATGTCCTGGTCATCC

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: PP1S100_117V6.1 (Physcomitrella patens), 3'ss of exon 8
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggct-actctg-tttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                                                          ||||    |         | ||| |    | ||||  |||   | |           |  |  || | | |     | || |||        | |  ||| ||| ||||| |||||||| || ||||| ||||||||||| |||||||||||||| || ||||| |||||||  || ||||| ||||||||||| ||| | |||||  
-------------------------------------------------------------------------catgtttccaaccctctcttcgttctc--ggtatcaaatttcgtaaa-------tcagtgctggaacgaacatttcgtgttttaattttgaatttatactgatttgcagGCTAATGATCCAACAATTGAGCGTATCATCACTCCTCGAATTGCACTCACTACTGCTGAATATTATGCTTATGAGTGTGGGAAGCATGTGTTGGTCATAC

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: PP1S85_75V6.1 (Physcomitrella patens), 3'ss of exon 7
----gtacatatagcagacttttgaagttctgattcatacca-attt----gttatgcatggaaactaattctgctagtgtatatgt------gcttattttctgtatggttatatatgcatcatttttaac-agaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactct---gtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
    |||||| |       | ||  |     ||||   |||| ||||     ||||  ||||||  | || | | |  | |   |          |  | |  | |  |  |  | |      |||||   | ||   |||   |  ||        ||     |    | | |    ||| |  |||   | || ||||| |||||||| || ||||| ||||| ||||| |||||||||||||| |||||||| || || |  || ||||| ||||| |||||||| || |||||| 
gtatgtacatcttcagttttcttttatcgtcgattttcaccacatttttggattatatatggaacttcatccagtttcttttcgtaatggaagagtcgtctgttttgagacttcacaaagtcaattttcctccagtccttgcgtttttttcctggattaagttctggaattttattttaggatcgtcttgggctttcagGCTAATGATCCAACAATTGAGCGTATTATCACACCTCGAATTGCACTTACAACTGCTGAGTACTACGCTTATGAGTGTGGAAAGCACGTTCTGGTCATCC

upper sequence: LOC_Os06g37180.1 (Oryza sativa), 3'ss of exon 8
lower sequence: EFJ13375 (Selaginella moellendorffii), 3'ss of exon 7
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                                                                                                                       | |||     |||||  || |  |   | | ||| ||  | |||   | ||  |  ||||||| || |||||||| || ||||||||||| || ||  | |||||  |||| || ||||||||| |||| ||||| || ||||| || ||||||||||| |
---------------------------------------------------------------------------------------------------------------------gtacgtta--tggattgacaatgccaatgcgtttttactc-ctccatcgtgcttcg--tacagGCGAACGATCCCACAATCGAACGTATCATTACTCCCAGGATTGCGTTGACGACGGCAGAATATCTGGCTTATGATTGCGGGAAACATGTGCTTGTCATTT

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|42591928|gb|CK738414.1|CK738414
EST:     TNTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: TTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTT-CTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|33684047|gb|CF312286.1|CF312286
EST:     ATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|33798187|gb|CF324953.1|CF324953
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|58685054|gb|CK073741.1|CK073741
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|29668004|gb|CB664279.1|CB664279
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|58605789|gb|CK033822.1|CK033822
EST:     A-TTGGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|58675652|gb|CK064339.1|CK064339
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|33793646|gb|CF322707.1|CF322707
EST:     TTTTGAAGAGAACGGGTNCAATGGAGCGGGTCACCCTACTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: TTTTGAAGAGAACGGGT-CAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|58654849|gb|CK043529.1|CK043529
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|2431508|gb|C73928.1|C73928
EST:     ACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|33675121|gb|CF303360.1|CF303360
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|300215980|gb|HO088606.1|HO088606
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTAAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|29669854|gb|CB666129.1|CB666129
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAAATGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|33676278|gb|CF304517.1|CF304517
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTA
EST: gi|218488188|gb|FG959862.1|FG959862
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|29681069|gb|CB677344.1|CB677344
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GGCAA-TGATCCCACCA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagG-CAAATGATCCCACCA
EST: gi|58688525|gb|CK077212.1|CK077212
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
EST: gi|29665772|gb|CB662047.1|CB662047
EST:     ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTG                         GCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA
genomic: ATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACA

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: 66 (upstream exon), 75 (downstream exon)
Score: 104

GTTTGCTGCTATGGGAGTGAATATGGAAACAGCCCAATTCTTCAAACGTGATTTTGAAGAGAACGGGTCAATGGAGCGGGTCACCCTTTTTCTGAATCTGgtacatatag ... ctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctgattgttaaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT
                           ttctaac  putative branch site (score: 104)
                                           ctctgttt  putative PPT
                   aacatattttctaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacatatagcagacttttgaagttctgattcataccaatttgttatgcatggaaactaattctgctagtgtatatgtgcttattttctgtatggttatatatgcatcatttttaacagaagttgacctgattgttaaaggtagaacatattttctaacaccaggctactctgtttacagGCAAATGATCCCACCATTGAACGTATCATCACCCCTCGAATTGCACTGACAACTGCAGAATATTTGGCATATGAATGTGGGAAGCACGTGCTTGTCATCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG