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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGCGGGACTTCAAGCGGCTGCAGCAGGACCCGCCCGCCGGAATCAGCGGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccacccacgcgccgtagccaccctcatctcaggcgctaggttttggagccgaggggatctcgcagagcttgtgattttcctattcgttgtggagttattttttttaattttttgtgtgggttgatttggttctgatgtcgtttgcttgtcatgtctggtacgattttgcag

Basic information

species Oryza sativa
transcript LOC_Os03g57790.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g57790.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G120674_T01 (Zea mays), 5'ss of exon 1
TGATGCGGGACTTCAAGCGGCTGCAGCAGGACCCGCCCGCCGGAATCAGCGGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccacccacgcgccgtagccaccctcatctcaggcgctaggttttggagccgaggggatctcgcagagcttgtgattttcctattcgttgtggagttattttttttaattttttgtgtgggttgatttggttctgatgtcgtttgcttgtcatgtctggtacgattttgcag
||||||||||||||||||| ||||||||||||||||||||||| ||||||||||||||| |||||||||| |||||||||||||||||||||||||||||||| |  ||| |                  |||  |  | ||||||    |||| | || |||| |    || || |       || |  | ||||         |||||||           | ||| |  | |         ||| ||  |  ||| || | ||||| |||||
TGATGCGGGACTTCAAGCGCCTGCAGCAGGACCCGCCCGCCGGCATCAGCGGCGCGCCGTACGACAACAATATCATGCTCTGGAACGCCGTCATATTCGGgtatcagcccgcctatt-------------tctgtgatgttaggttagctagcctaagg-atctagtgaggcgtgaggccgcgatacttttggtggg--------ttttaat-----------gctgactgtgct---------ttttctcttggtgtttgttgcgattctgcag

upper sequence: LOC_Os03g57790.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G007260_T01 (Zea mays), 5'ss of exon 1
TGATGCGGGACTTCAAGCGGCTGCAGCAGGACCCGCCCGCCGGAATCAGCGGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccacccacgcgccgtagccaccctcatctcaggcgctaggttttggagccgaggggatctcgcagagcttgtgattttcctattcgttgtggagttattttttttaattttttgtgtgggttgatttggttctgatgtcgtttgcttgtcatgtctggtacgattttgcag
|||||||||||||||||||| |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||  ||             ||| ||    |||  |  | ||||||    |||| | || ||||      |   | |  |    || |    |||  |    |  ||||  | |    ||| | ||| |  | |||||  |                                  
TGATGCGGGACTTCAAGCGGTTGCAGCAGGACCCGCCCGCCGGCATCAGCGGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtaatca------------ggccgcctatttctgtgatgttaggttagctagcctaagg-atctgatgaggtgcgaggctgcaatacttacggtgctgactgtgcttttgctat----tgtcgtttgttgcgattctgcag----------------------------------

upper sequence: LOC_Os03g57790.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S91_87V6.1 (Physcomitrella patens), 5'ss of exon 1
TGATGCGGGACTTCAAGCGGCTGCAGCAGGACCCGCCCGCCGGAATCAGCGGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccacccacgcgccgtagccaccctcatctcaggcgctaggttttggagccgagg----ggatctcgcagagcttgtgattttcctattcgttgtggagttattttttttaattttttgtgtgggttgatttggttctgatgtcgtttgcttgtcatgtctggtacgattttgcag
||||||| ||||||||||| |||||||| || || || ||||| ||||||||||| ||||| ||||||||||||||| | ||||| || |||||||||||||    |||||  | ||    | |   || |       |||   || ||  |    |     | |  |||  | ||  |    ||| |    || ||| |  ||                                                                           
TGATGCGCGACTTCAAGCGCCTGCAGCATGATCCTCCGGCCGGCATCAGCGGCGCCCCGCAGGACAACAACATCATGTTGTGGAATGCTGTCATATTCGGgt----acccaaactcctccccgattttcgttctgcatgctcaattgtgtcggtatgaatgcgaaattcgtggggcgcggagatttgcatggcggtgtcggttt---------------------------------------------------------------------------

upper sequence: LOC_Os03g57790.1 (Oryza sativa), 5'ss of exon 1
lower sequence: PP1S219_106V6.1 (Physcomitrella patens), 5'ss of exon 1
TGATGCGGGACTTCAAGCGGCTGCAGCAGGACCCGCCCGCCGGAATCAGCGGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccacccacgcgccgtagccaccctcatctcaggcgctaggttttggagccgaggggatctcgcagagcttgtgattttcctattcgttgtggagttattttttttaattttttgtgtgggttgatttggttctgatgtcgtttgcttgtcatgtctggtacgattttgcag
||||||| |||||||||||  |||| || || || || ||||| ||||||||||| ||||| |||||||| |||||||| ||||| || || ||||||||||| | |    | | || | |   |  |  |         |  ||   |  |  | | |||  |||| | || || ||    |     ||| |  | ||   ||||                                                                     
TGATGCGTGACTTCAAGCGCTTGCAACATGATCCTCCGGCCGGCATCAGCGGCGCTCCGCAGGACAACAATATCATGCTGTGGAATGCTGTGATATTCGGgtaacgaagtgc-ctccctggtttcgttttttgttca-attgtgtccggtcgtggtgcggaattcgccgggcgtgggaggcgca----cgtcggagtgtcggtttt---------------------------------------------------------------------

upper sequence: LOC_Os03g57790.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ16328 (Selaginella moellendorffii), 5'ss of exon 1
TGATGCGGGACTTCAAGCGGCTGCAGCAGGACCCGCCCGCCGGAATCAGCGGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccacccacgcgccgtagccaccctcatctcaggcgctaggttttggagccgaggggatctcgcagagcttgtgattttcctattcgttgtggagttattttttttaattttttgtgtgggttgatttggttctgatgtcgtttgcttgtcatgtctggtacgattttgcag
||||||| ||||||||||| || || || || || ||||| |||||||||||||||||||| |||||||||||||||||||||||||| || || |||||||||  |   |  |||  | | |||     | ||     |||  | ||||   ||      | | ||||                                                                                                          
TGATGCGAGACTTCAAGCGCCTCCAACACGATCCTCCCGCGGGAATCAGCGGCGCGCCGCAGGACAACAACATCATGCTCTGGAACGCGGTGATCTTCGGgtaggaatgtagccgc--tcggcactagggtatcgat--ctaactcttggtttcg------tgttgcag----------------------------------------------------------------------------------------------------------

upper sequence: LOC_Os03g57790.1 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ17802 (Selaginella moellendorffii), 5'ss of exon 1
TGATGCGGGACTTCAAGCGGCTGCAGCAGGACCCGCCCGCCGGAATCAGCGGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccacccacgcgccgtagccaccctcatctcaggcgctaggttttggagccgaggggatctcgcagagcttgtgattttcctattcgttgtggagttattttttttaattttttgtgtgggttgatttggttctgatgtcgtttgcttgtcatgtctggtacgattttgcag
||||||| ||||||||||| || || || || || ||||| |||||||||||||||||||| |||||||||||||||||||||||||| || || |||||||||  |   |  |||  | | |||     | ||     |||  | ||||   ||      | | ||||                                                                                                          
TGATGCGAGACTTCAAGCGCCTCCAACACGATCCTCCCGCGGGAATCAGCGGCGCGCCGCAGGACAACAACATCATGCTCTGGAACGCGGTGATCTTCGGgtaggaatgtagccgc--tcgacactagggtatcgat--ctaactcttggtttcg------tgttgcag----------------------------------------------------------------------------------------------------------

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|11025772|gb|AU162373.1|AU162373
EST:     ACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: ACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|58688873|gb|CK077560.1|CK077560
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|38469192|gb|CF953323.1|CF953323
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|4716198|gb|AU057314.1|AU057314
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|38468844|gb|CF952975.1|CF952975
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|218505167|gb|FG956727.1|FG956727
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|38469613|gb|CF953744.1|CF953744
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|58590675|gb|CF988983.1|CF988983
EST:     GGGGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|42592241|gb|CK738727.1|CK738727
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|218485740|gb|FG958740.1|FG958740
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|27576883|gb|CA999577.1|CA999577
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|38468296|gb|CF952427.1|CF952427
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|38474625|gb|CF958758.1|CF958758
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|86419732|gb|CI054533.1|CI054533
EST:     GCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|38480664|gb|CF964753.1|CF964753
EST:     GCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|58677295|gb|CK065982.1|CK065982
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|29666285|gb|CB662560.1|CB662560
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|33797775|gb|CF324747.1|CF324747
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG
EST: gi|218500669|gb|FG957555.1|FG957555
EST:     GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGG                         ACCGGATGACACGCCGTGGGATGGAG
genomic: GGCGCGCCGCACGACAACAACATCATGCTCTGGAACGCCGTCATATTCGGgtagccaccc ... gattttgcagACCGGATGACACGCCGTGGGATGGAG