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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGTAATTTGAAGAATCTTATAAGCTTGGACCTGTACAAGAACAACATTTCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgtgttattcaaatgatctcattgtaaaatagttctaagttctcacatgttagctactgatttcatgccgtatatgcacattctgcatacttc...

Basic information

species Oryza sativa
transcript LOC_Os01g59440.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g59440.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G121820_T01 (Zea mays), 5'ss of exon 3
TTGGTAATTTGAAGAATCTTATAAGCTTGGACCTGTACAAGAACAACATTTCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttg----tgttattcaaatgatctcattgtaaaatagttctaagttctcacatgttagctactgatttcatgccgtatatgcacattctgcatacttc-
|||| |||||||||||||| |||||||| ||| ||||||||||||||||||| ||||| ||||||||  | ||||| || || | |||||||||||||||||||||||     ||| | |    |   |  ||| ||||  | |   |  || |||||| |||||  || |         | || || |  |  | |    ||  
TTGGCAATTTGAAGAATCTAATAAGCTTCGACTTGTACAAGAACAACATTTCGGGGACAATACCTCCTGCCCTTGGAAAGTTGAAGTCCCTTGTATTCTTgtaagtttaattctgtaaattctgtttacatattataaataattgtcagattgtcacatcttagcagctaaa-----agtggatttgaatttgatactagttttg

upper sequence: LOC_Os01g59440.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G815009_T01 (Zea mays), 5'ss of exon 3
TTGGTAATTTGAAGAATCTTATAAGCTTGGACCTGTACAAGAACAACATTTCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgtgttattcaaatgatctc-----attgtaaaatagttctaagttc-tcacatgttagctactgatttcatgccgtatatgcacattctgcatacttc
||||||||||||||||||| |||||||||||| ||||||||||||||||||| ||||| ||||||||  | ||||| || || |  |||||||||||| ||||||||  | || |  |||| || |      |||||||||||||| | || |  |||||| ||||| ||| |           |||      ||    ||     
TTGGTAATTTGAAGAATCTAATAAGCTTGGACTTGTACAAGAACAACATTTCGGGGACAATACCTCCTTCCCTTGGAAAGTTGAAATCCCTTGTATTCCTgtaagttcat-ttctgtaaattatgtttacatattgtaaaatagttgtcagcttgtcacatcttagcaactaaaagtggatttgatagtagtttttctgat-----
















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|2317317|gb|C22371.1|C22371
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|88241413|gb|CI241262.1|CI241262
EST:     CTGGGACTATACCTCCAACACTTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: CTGGGACTATACCTCCAACAC-TTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|66916421|gb|CX103269.1|CX103269
EST:     CTCCAACACTTGGG-AATT-ACTG-CCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGTGCCAATCCCAATGGAACTGGCCGG
genomic: CTCCAACACTTGGGAAATTAAC-GTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|29642936|gb|CB647943.1|CB647943
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|87018477|gb|CI252231.1|CI252231
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|55440912|gb|CV733769.1|CV733769
EST:     CCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: CCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|87034659|gb|CI189283.1|CI189283
EST:     CCTT-TATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: CCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|86424519|gb|CI063280.1|CI063280
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|87036087|gb|CI189534.1|CI189534
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAAACGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|27577115|gb|CA999809.1|CA999809
EST:     GAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: GAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|88515042|gb|CI442696.1|CI442696
EST:     CAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: CAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|88239634|gb|CI238796.1|CI238796
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATGAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|86492888|gb|CI135521.1|CI135521
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|86424517|gb|CI063278.1|CI063278
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATGAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|89163681|gb|CI100571.1|CI100571
EST:     TGGGACTATACCTCCAACACTTGGGAAATNAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|157652581|gb|EX452215.1|EX452215
EST:     GTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: GTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|8856670|gb|AU093988.1|AU093988
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|11173068|gb|AU164597.1|AU164597
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|11442641|gb|BF430544.1|BF430544
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|24468891|gb|CA305840.1|CA305840
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|86253994|gb|CI058721.1|CI058721
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|3548933|gb|AF074734.1|AF074734
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|86434587|gb|CI105820.1|CI105820
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATNAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|86252357|gb|CI056094.1|CI056094
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|88199587|gb|CI199437.1|CI199437
EST:     TCTGGGACTACACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|218479908|gb|FG956823.1|FG956823
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
EST: gi|88245833|gb|CI245682.1|CI245682
EST:     TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTT                         GCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG
genomic: TCTGGGACTATACCTCCAACACTTGGGAAATTAACGTCCCTTGTATTCTTgtaagtttgt ... tgctttgaagGCGGCTCAATGGCAATCGCTTGACTGGGCCAATCCCAAGGGAACTGGCCGG