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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaatgcttgttgctgtttcagaagaccttgctttattgcaaggatggtcacttaatcttacttattgggtcttaatatcacatttcttcttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG

Basic information

species Oryza sativa
transcript LOC_Os06g06030.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g06030.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G102596_T02 (Zea mays), 3'ss of exon 2
aaaatgcttgttgctgtttcagaagaccttgctttattgcaaggatggtcacttaatcttacttattgggtctta--atatcacatttcttcttacct---gcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG
    ||  |  |  |  || |||| | |  |  | ||    |   | || || | |  ||   || ||  || ||  || ||||  ||||| |||  |   ||||| || ||||| |||||||||||||||||||||||||| |||||||| || |||||||| ||||||||||||||||| |||||||||||||||||| | ||
---ctgggttctcttagttaagaaaatcgggactgatgttcat--ttgtgacatgagattgtatactgtttcatatgatctcactgttctttttatatttcgcagCCTCACAAACCGTGAGGAAAATTATTGAAATAAATCCTTACATGCTGGGGACAATGGCTGGAGGTGCTGCTGATTGCCAATTTTGGCATAGGAACCTAGG

upper sequence: LOC_Os06g06030.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA06G17960.1 (Glycine max), 3'ss of exon 3
-----------------------------aaaatgcttgttgctgtttcagaagaccttgctttattgcaaggatggtcacttaatcttacttattg--------ggtcttaatatcacatttcttcttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG
                               | |  |  ||| |  ||  |   |   ||  || ||       | || ||||     || || | |        | |||| |  |   | |  |   |  || |||| |||||  |||||| ||| ||||||||||| |||||||| |||||||| |||||||| |||||||||||||||||||| |||||||| |||||  | ||
gtgagtgtttgttaattttaactttaatttcactattctttgttcctttggtgaatgctgagtttttatgttacttgttacttttatctatttgtggttgtctttgttcttgaattttgagtgttggctgtctccagCATCGCAGTCTGTGAAGAAGATTATTGAAATTAATCCGTATATGCTTGGGACAATGGCTGGAGGTGCTGCTGATTGTCAGTTTTGGCACAGGAATCTTGG

upper sequence: LOC_Os06g06030.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA04G37030.3 (Glycine max), 3'ss of exon 3
----------------------------------------------------------aaaatgcttgttgctgtttcagaagaccttgctttattgcaaggatgg---tcacttaatcttact-tattgggtcttaatatcacatttcttcttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG
                                                            |  | || ||| | ||     |     |||   |||  || |||||   | |  || |   | | | || | |||| |  ||  | |  |   |  || |||| |||||  |||||| ||||||||| ||||| |||||||| |||||||| |||||||| || |||||||||||||| || |||||||| |||||  | ||
gtgagtatttgttagattttaatttcatttttcactgttctttgttcctttggctgaggcagagttttttgtttttgtgctaattgctgcaa-attaaaatgatgggttttatctatttgcattgtgtttgatcttgaattctgactgttggctgtctccagCGTCGCAGTCTGTGAAGAAAATTATCGAAATCAATCCGTATATGCTTGGGACAATGGCTGGTGGTGCTGCTGATTGCCAGTTTTGGCACAGGAATCTCGG

upper sequence: LOC_Os06g06030.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT3G26340.1 (Arabidopsis thaliana), 3'ss of exon 3
aaaatgcttgttgctgtttcagaagaccttgctttattgcaaggatggtcacttaatcttacttattgggtcttaatatcacatttct--tcttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG
||| | ||  |   ||||      | |  || |    | ||   |  |  |    |  || ||   ||  |  | || |    ||| |  | || | | |||| |||||| |||||| ||| ||||||||||| ||||| || |||||||| |||||||| || |||||||||||||||||||| ||||| || ||  ||||
aaatttctaatctttgttgtgttggccagtgatactgtacagtaaaagaaaggagaaatttct--gtgattgctgatgttttgtttgtgtttttccattcagCGTCGCAATCTGTGAAGAAGATTATTGAAATTAATCCTTATATGCTTGGTACAATGGCTGGTGGTGCTGCTGATTGTCAATTCTGGCACAGAAATCTGGG

upper sequence: LOC_Os06g06030.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT1G13060.2 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------------------------------------------aaaatgcttgttgctgtttcagaagaccttgctt-tattgcaaggatggtcacttaatcttacttattgggtcttaatatcacatttcttcttacc---tgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG
                                                           ||| | || |||    ||      | | ||  || |    ||     ||  |   ||  ||   |  |   | ||||| |   |  |||  |||||   | |||| || ||| |||||| ||| ||||||||||| ||||| || ||||| || |||||||| ||||| ||||||||||| ||||| ||||| || ||  | ||
gtacaatgaagattaagttagcttgttgttggttttggttttgtgctggagtgtcaaacaaatttctagttttcattctgttggccattaattgtgaaccagtagaggaaagaaaacgttgtgtgatttttgttaatgttttaaatctgtttaccacattcagCCTCACAATCTGTGAAGAAGATTATTGAAATCAATCCTTATATGCTCGGTACAATGGCTGGAGGAGCTGCTGATTGCCAATTCTGGCACAGAAATCTTGG

upper sequence: LOC_Os06g06030.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT1G13060.1 (Arabidopsis thaliana), 3'ss of exon 3
aaaatgcttgttgctgtttcagaagaccttgctt-tattgcaaggatggtcacttaatcttacttattgggtcttaatatcacatttcttcttacc---tgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG
    | || |||    ||      | | ||  || |    ||     ||  |   ||  ||   |  |   | ||||| |   |  |||  |||||   | |||| || ||| |||||| ||| ||||||||||| ||||| || ||||| || |||||||| ||||| ||||||||||| ||||| ||||| || ||  | ||
----ttctagttttcattctgttggccattaattgtgaaccagtagaggaaagaaaacgttgtgtgatttttgttaatgttttaaatctgtttaccacattcagCCTCACAATCTGTGAAGAAGATTATTGAAATCAATCCTTATATGCTCGGTACAATGGCTGGAGGAGCTGCTGATTGCCAATTCTGGCACAGAAATCTTGG

upper sequence: LOC_Os06g06030.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv01s0010g02900.t01 (Vitis vinifera), 3'ss of exon 3
--aaaatgcttgttgctgtttcagaagaccttgctttattgcaaggatggtcacttaatcttacttattgggtcttaatatcacatttcttcttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG
   |  || |     || |     | ||  | |    ||     |||   |   |  ||  | | |||| | | | | | ||    ||| |  |   |||||| || ||| |||||| ||||||||||||||| ||||| ||||||||||| |||||||| ||||| ||||||||||| || |||||||| || || |||||
ctcatctgatcaaaactttgaaccatgaaatagggagatcttttggactttggatgcat--tgcctatttgttttcattgtcttccttccttatttttgcagCATCACAATCTGTGAAGAAAATTATTGAAATTAATCCCTACATGCTTGGCACAATGGCTGGAGGAGCTGCTGATTGCCAGTTTTGGCACAGAAATTTGGG

upper sequence: LOC_Os06g06030.1 (Oryza sativa), 3'ss of exon 2
lower sequence: PP1S2_300V6.1 (Physcomitrella patens), 3'ss of exon 2
aaaatgcttgttgctgtttcagaagaccttgctttattgcaaggatggtcacttaat--cttacttattgggtcttaatatca----catttcttcttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG
        ||  | |     ||    |  |  || | || | |||   | |   ||    ||| ||  |   ||||  |  ||    ||||  || |      |||| |||||| | |||| ||||||| | ||||| || || ||| || | || |||||||| ||||||||||| |||||||| ||||||||  | ||  | ||
------agtgaggtttcccaaggttgcactatttaaatgtatggagcatgaagaaagggtttagttggtacatcttgctgacaagtgcattgtttttccatcacagCCTCGCAATCGGTGAAGAAAATTTTGGAAATCAACCCTTACTTGTTGGGCACAATGGCTGGAGGTGCTGCAGATTGTCAGTTTTGGCAACGAAATCTAGG

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|163927773|gb|EG710541.1|EG710541
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|2428687|gb|C73150.1|C73150
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAG-ATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|58597702|gb|CK008230.1|CK008230
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|88301098|gb|CI594624.1|CI594624
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|58600214|gb|CK010742.1|CK010742
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|58595565|gb|CK006093.1|CK006093
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|86830088|gb|CI290291.1|CI290291
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|568280|gb|D39117.1|D39117
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAN-ATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAA
EST: gi|29669742|gb|CB666017.1|CB666017
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|87023733|gb|CI286484.1|CI286484
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|218491233|gb|FG953090.1|FG953090
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTCTTGACATCCCTCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|58604003|gb|CK014531.1|CK014531
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|88377147|gb|CI597931.1|CI597931
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|58600793|gb|CK011321.1|CK011321
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|2443151|gb|C74922.1|C74922
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAG-ATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|88402829|gb|CI613277.1|CI613277
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGC-AGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATACGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|58592922|gb|CF991230.1|CF991230
EST:     GGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|58604785|gb|CK015313.1|CK015313
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|88744778|gb|CI768138.1|CI768138
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|8858107|gb|AU095425.1|AU095425
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|88400394|gb|CI593469.1|CI593469
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|218499941|gb|FG967251.1|FG967251
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|88745098|gb|CI768458.1|CI768458
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|55411406|gb|CV723782.1|CV723782
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|86887603|gb|CI294237.1|CI294237
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|10931155|gb|AU161429.1|AU161429
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
EST: gi|33801628|gb|CF326686.1|CF326686
EST:     GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATAT                         CTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA
genomic: GGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAA

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: 148

ATGCTGAAGCACAAGAAGGGAACGACCACGCTCGCGTTCATCTTCGACAAGGGCGTCATCGTCGCCGCCGACTCCCGCGCCAGCATGGGCGGATACATATgtgagcgctc ... ttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtcacttaatcttacttattgggtcttaatatcacatttcttcttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG
                                          ttcttac  putative branch site (score: 148)
                                    catttcttcttacct  CT-rich tract
       ttaatcttacttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaatgcttgttgctgtttcagaagaccttgctttattgcaaggatggtcacttaatcttacttattgggtcttaatatcacatttcttcttacctgcagCTTCGCAAACTGTGAGGAAAATTATTGAAATAAATCCGTACATGCTTGGAACAATGGCAGGAGGTGCTGCTGATTGTCAATTTTGGCATAGGAACTTGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
-aaatgct
- - - - tgttgct
- - - - - - - - - - - - - -cttgctt
- - - - - - - - - - - - - - - - - - -tgcaagg