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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatcctaccagaccagatatcacattttttggatgcactagattgtgtagttcgctagcttactgtccatcttgtacatttgaatttggatgtcaagcaacatattttagttttcagataaaccttgttgtattctttttcttggcatgactcctgatttgttttatcag

Basic information

species Oryza sativa
transcript LOC_Os03g53230.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g53230.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G089359_T01 (Zea mays), 5'ss of exon 1
CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatcctaccagaccagatatcacattttttggatgcac-tagattgtgtagttcgctagcttactgtc--catcttgtacatttgaatttggatgtcaagcaac-atatttt-agttttcagataaac-------cttgttgtattctt--tttcttggcatgactcctgatttgtttt----atcag
||| || || || || |||||||| ||||||||||| || | ||| ||||| ||||||||||||||||| || |||| |||||| |||||||||||||||||||| |||||| || |||||||| ||   ||  ||  |||||| |  | || |||      |   || |  |   ||| || | ||  |  ||    ||||||| |    || |||| |||| |||   |||         || |||| |   |  ||||||| |||   || ||  |  | ||    |||||
CCATCCCACGGAGAAAAGGGACCTCTATGATGCTGACCACGAGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgccatccttcctgaccagatctc---ttcctttcatgcacatccagtgagtaaaagaatgtattgcaattagcattttcttcacatctatacacatgtcaatctttgatgtttttagttatcaagaaaatagaaagatttattgtttgtctgctttcttgacatttttcttgtctcttattccggatcag

upper sequence: LOC_Os03g53230.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G149952_T01 (Zea mays), 5'ss of exon 3
CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatcctaccagaccagatatcacattttttggatgcactagattgtgtagttcgctagcttactgtccatcttgtacatttgaatttggatgtcaagcaacatattttagttttcagataaaccttgttgtattctttttcttggcatgactcctgatttgttttatcag
|||||| || || || |||||||| |||||||||||||| || || ||||| ||||||||||||||||| ||||||| |||||| |||||||||||||||||||||||||||| | |||||||| |    || |||  |||||      | || |||  | |||   ||    ||| ||| | |||   |||| | ||   | |   | |                                                                  
CCACCCCACAGAGAAAAGGGACCTCTATGATGCTGATCACGGAAAGAAGGTTTTGAGCATGGCTCCTGGCCTTGAGAGGCTCAACATCCTTCCTTTCAAGgtatgtcatcctatctgaccagatttt--tttctttccatgca------tatgcagtgag-tagaaaacaa--catattgca-attaacattttgctgcacatctttacaca----------------------------------------------------------------

upper sequence: LOC_Os03g53230.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G302080_T01 (Zea mays), 5'ss of exon 10
CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatcctaccagaccagatatcacattttttggatgcac-tagattgtgtagttcgctagcttactgtcca---tcttgtacatttgaatttggatgtcaagc---aacatattttagttttcagataaac-------cttgttgtattctt--tttcttggcatgactcctgatttgtttt----atcag
||| || || || || | |||||| ||||||||||| || ||||| ||||| ||||||||||||||||| || |||| |||||| |||||||||||||||||||| |||||| || |||||||| ||   ||  ||  |||||| |  | || |||          || |  |      | || | ||  |  ||    ||||||| |    |  | |||||||| |||   |||         || |||| |   |  ||||||| |||   || ||  |  | ||    |||||
CCATCCCACGGAGAAAATGGACCTCTATGATGCTGACCACGGGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgccatccttcctgaccagatctc---ttccttccatgcacatccagtgagtaaaagaacgtattgcaattagcatttttcttcacatctatacacatgtcaatctttgatgttttttagttatcaagaaaatagaaagatttattgtttgtctgctttcttgacatttttcttgtctcttattctggatcag

upper sequence: LOC_Os03g53230.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G088348_T01 (Zea mays), 5'ss of exon 10
CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatcctaccagaccagatatcacattttttggatgcac-tagattgtgtagttcgctagcttactgtcca---tcttgtacatttgaatttggatgtcaagcaac-atatttt-agttttcagataaac-------cttgttgtattctt--tttcttggcatgactcctgatttgtttt----atcag
||| || || || || |||||||| ||||||||||| |||||||| ||||| ||||||||||||||||| || |||| |||||| |||||||||||||||||||| |||||| || |||||||| ||   ||  ||  |||||| |  | || |||          || |  |      | || | ||  |  ||    ||||||| |    || |||| |||| |||   |||         || |||| |   |  ||||||| |||   || ||  |  | ||    |||||
CCATCCCACGGAGAAAAGGGACCTCTATGATGCTGACCATGGGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgccatccttcctgaccagatctc---ttccttccatgcacatccagtgagtaaaagaacgtattgcaattagcatttttcttcacatctatacacatgtcaatctttgatgtttttagttatcaagaaaatagaaagatttattgtttgtctgctttcttgacatttttcttgtctcttattccggatcag

upper sequence: LOC_Os03g53230.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G051270_T02 (Zea mays), 5'ss of exon 4
CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatcctaccagaccagatatcacattttttggatgcac-tagattgtgtagttcgctagcttactgtcca---tcttgtacatttgaatttggatgtcaagc---aacatattttagttttcagataaac-------cttgttgt--attctttttcttggcatgactcctgatttgttttatcag-----
||| || || || || |||||||| ||||||||||| || ||||| ||||| ||||||||||||||||| || |||| |||||| |||||||||||||||||||| |||||| || |||||||| ||   ||  ||  |||||| |  | || |||          || |  ||     | || | ||  |  ||    ||||||| |    |  | |||||||| |||   |||         || ||||   |   |||||||| |||   || || | |||| |  | |     
CCATCCCACGGAGAAAAGGGACCTCTATGATGCTGACCACGGGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgccatccttcctgaccagatctc---ttccttccatgcacatccagtgagtaaaagaacgtattgcaatcagcatttttcttcacatctatacacatgtcaatctttgatgttttttagttatcaagaaaatagaaagatttattgtttgtctgttttcttgacatttttcttg-tctgttattccggatcag

upper sequence: LOC_Os03g53230.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatcctaccagaccagatatcacattttttggatgcactagattgtgtagttcgct-agcttactgtccatcttgtacatttgaatttggatgtcaagcaacatattttagttttcagataaaccttgttgtattctttttcttggcatgactcctgatttgttttatcag
||| |||  ||| || || || |||||||||||||| |||||||| || || ||||||||||| || || || |||   || || || |||||||||| ||||  |          ||  |  |  |   |  || | ||  |||     ||| ||||| || ||   ||| |  |   |||     | | |||   |     |||                                                                       
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaatt----------gagaatttgccttctcattagtataaactga---gtgaagttcacttaggccactttgaaatatgtgttgatcattttcattcatttgcag----------------------------------------------------------------------

upper sequence: LOC_Os03g53230.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv05s0020g04210.t01 (Vitis vinifera), 5'ss of exon 3
CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatcctaccagaccagatatcacattttttggatgcactagattgtgtagttcgctagcttactgtccatcttgtacatttgaatttggatgtcaagcaacatattttagttttcagataaaccttgttgtattctttttcttggcatgactcctgatttgttttatcag
|||||||  ||| ||||| ||| | ||||||||||| |||||||| ||||| ||||||||||||||||| || ||   ||| || ||||||||||||||||||| | |    || |    || | | |      |   |    ||    ||| || ||    |  |  ||||     |   |  ||    | |   ||                                                                              
CCACCCAGTTGAGAAGAGAGACTTATATGATGCTGACCATGGGAAGAAGGTATTGAGCATGGCTCCTGGACTGGAACGGCTAAACATCCTTCCTTTCAAGgtatataa----actattgtagctcttatgaaactcaaaattgctttcctgtttaatttatgaaat--ctgtaggattcacaagttgaggtataattgcag---------------------------------------------------------------------------

upper sequence: LOC_Os03g53230.1 (Oryza sativa), 5'ss of exon 3
lower sequence: PP1S331_37V6.1 (Physcomitrella patens), 5'ss of exon 5
CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgta-tgtcatcctaccagaccagatatcacat---tttttggatgcactagattgtgtagttcgctagcttactgtccatcttgtacatttgaatttggatgtcaagcaacatattttagttttcagataaaccttgttgtattctttttcttggcatgactcctgatttgttttatcag
|||||| ||||    | | || || || || || || || || || | |||| | |||||||||||||| |||||||||||||| || || || |||| |||| |  ||   |  ||| ||  || | | |    ||| |   |    ||  |||||  ||  |    || |  |  |||||   |||  ||  |    |||                                                                              
CCACCCCACTGCCGGGCGCGATCTCTACGACGCAGACCACGGAAAGATGGTGCTCAGCATGGCTCCTGGCCTTGAGAAGCTCAACATTCTGCCCTTCAGGgtaattccagaatgacagcccctatctgataaatgtttctctgtcgtttatgttgtgctgtgagactactca--gctcatctgaaacaaatgtgtagaaatg------------------------------------------------------------------------------

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|58679175|gb|CK067862.1|CK067862
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACCAAGCCAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|29681905|gb|CB678180.1|CB678180
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|86851846|gb|CI316415.1|CI316415
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|55409116|gb|CV721492.1|CV721492
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|3761173|gb|C98421.1|C98421
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|88850953|gb|CI096343.1|CI096343
EST:     CTCAATATTCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: CTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|29614774|gb|CB619787.1|CB619787
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|11173164|gb|AU164644.1|AU164644
EST:     TTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|88222150|gb|CI222106.1|CI222106
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|33794987|gb|CF323373.1|CF323373
EST:     TGTTGAGCATGGCTCCTGNGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAA
EST: gi|88230991|gb|CI230840.1|CI230840
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCTAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|27577783|gb|CB000478.1|CB000478
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|88957043|gb|CI095087.1|CI095087
EST:     TGTTGAGTATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|89174813|gb|CI111011.1|CI111011
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|29656058|gb|CB652333.1|CB652333
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|66924054|gb|CX110902.1|CX110902
EST:     TGATGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTACTTTCAAG                         GTGGCTGCATATGACACAAAACAAAAGAAAATGGACTTTTTCGAT
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGAT
EST: gi|33812718|gb|CF332246.1|CF332246
EST:     TGTTGAGCATGGCTCCTGNGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         G-GTCTGCATATGACACAAAGCAAAAGAAAATGGACTTTCTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|86864580|gb|CI344171.1|CI344171
EST:     GGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: GGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|88985711|gb|CI016420.1|CI016420
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|112786244|gb|EE592353.1|EE592353
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|29662144|gb|CB658419.1|CB658419
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|88259721|gb|CI364014.1|CI364014
EST:     TGTTGAGCATTGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|86501359|gb|CI143992.1|CI143992
EST:     TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
EST: gi|88833263|gb|CI076746.1|CI076746
EST:     TGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAG                         GTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA
genomic: TGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCA

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), 72 (downstream exon)
Score: 164

CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatc ... gttttatcagGTGGCTGCATATGACACAAAGCAAAAGAAAATGGACTTTTTCGATCCATCAAGGAAAGATGATTTCCTGTTCATCTCTGGCACAAAG




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatcctaccagaccagatatcacattttttggatgcactagattgtgtagttcgctagcttactgtccatcttgtacatttgaatttggatgtcaagcaacatattttagttttcagataaaccttgttgtattctttttcttggcatgactcctgatttgttttatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA