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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATTTTACTTCATTGGATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagttttataaaacttgatcttagccaaagccaaatagtaacaccttggtgtctgttcagcaacactccttcattctgccgttcatcatcatgcgtca...

Basic information

species Oryza sativa
transcript LOC_Os01g57220.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g57220.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G169773_T01 (Zea mays), 5'ss of exon 10
ATATTTTACTTCATTGGATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagttttataaaacttgatcttagccaaagcca-aatagtaacaccttggtgtctgt-tcagcaacactccttcattctgccgttcatcatcatgcgtca---------------------------------------------------------------
|||||||||||||||||||||||| ||||||||||||||||||| |||||| | |||||||| |||||| || | ||     ||    || ||     | | |||  | |    | ||  | |   | |||||||     |   | |  | | |||||| ||   ||                                                                
ATATTTTACTTCATTGGATTTGGAATGTTCTGCCTTGAATCACTGCTCAGCATCGTTGTCATTCAGgtgggtatcatgtt-tttaccttttgctgtccctagaattctgatgtgtagggatattcattagcaacatggtgtttctgtctcatgcatcataatctctctttaagtttcaattattctagaagagagctgttttgagatattattgttctgaacttgtttcag

upper sequence: LOC_Os01g57220.1 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA13G25460.1 (Glycine max), 5'ss of exon 11
ATATTTTACTTCATTGGATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagttttataaaacttgatcttagccaaagccaaatagtaacaccttggtgtct-gttcagcaacactccttcatt--ctgccgttcatcatcatgcgtca-------------------
|| || |||||||||||||||||| |||||||| ||||| |  |  ||||| ||   || || |||||  |  | | |   ||||| |||  | |    |  |     |  |    |  | | |     ||  | | | | ||    | ||    | || |   |                       
ATCTTCTACTTCATTGGATTTGGATTGTTCTGCGTTGAAACTTTGATCAGCATTTGGGTTATTCAGgtttgact-acacttcttgaactttccaatcatcttaagcacatgcaccagcattttgaatgccatgatttccttatgaattaccacataccaactcactatttctttggtttgctatacag

upper sequence: LOC_Os01g57220.1 (Oryza sativa), 5'ss of exon 11
lower sequence: Vv12s0059g01930.t01 (Vitis vinifera), 5'ss of exon 11
ATATTTTACTTCATTGGATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtg-agttttataaaacttgatcttagccaaagccaaatagtaacacct-tggtgtctgttcagcaacactccttcattctgccgttcatcatcatgcgtca
||||| ||| | |||||||||||| ||||||||||||||||||| |||||  |    ||  | |||||  |||  | | |    |  |  |   |     | |     | ||| | |  ||  | ||        ||   ||  | ||   |  |||   ||  |   
ATATTCTACCTTATTGGATTTGGATTGTTCTGCCTTGAATCACTGCTCAGTATCTGGGTTGTTCAGgttcagtagtctgatttctagttct--tctgcttctatctccagcacttctactgcatcttggtttcttctaactctctttgttctcaatcccaatatgcag

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|25803449|gb|CA759418.1|CA759418
EST:     GATTTGGACTGTTCTGCCTTGAATCACTACTAAGCGTTGTTGTCATCCAG                         CAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGGAACGT
genomic: GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagtttta ... tgaaatgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
EST: gi|86258735|gb|CI065088.1|CI065088
EST:     GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAG                         CAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
genomic: GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagtttta ... tgaaatgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
EST: gi|87035348|gb|CI189970.1|CI189970
EST:     GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAG                         CAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
genomic: GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagtttta ... tgaaatgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
EST: gi|89180045|gb|CI044324.1|CI044324
EST:     GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAG                         CAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
genomic: GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagtttta ... tgaaatgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
EST: gi|55412661|gb|CV725037.1|CV725037
EST:     GATTTGGACTGTTTTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAG                         CAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
genomic: GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagtttta ... tgaaatgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
EST: gi|86889655|gb|CI299853.1|CI299853
EST:     GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAG                         CAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
genomic: GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagtttta ... tgaaatgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
EST: gi|86866030|gb|CI336785.1|CI336785
EST:     GTTCTGGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAG                         CAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
genomic: GTTCT-GCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagtttta ... tgaaatgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
EST: gi|3760903|gb|C98157.1|C98157
EST:     GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAG                         CAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
genomic: GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagtttta ... tgaaatgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
EST: gi|88225943|gb|CI225859.1|CI225859
EST:     ACTGTTCTGCCTTGAATCACTACTCAGCTTTGTTGTCATCCAG                         CAAGTATACAGGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
genomic: ACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagtttta ... tgaaatgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
EST: gi|33683758|gb|CF311997.1|CF311997
EST:     GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAG                         CAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
genomic: GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagtttta ... tgaaatgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
EST: gi|88988413|gb|CI037656.1|CI037656
EST:     GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAG                         CAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT
genomic: GATTTGGACTGTTCTGCCTTGAATCACTACTCAGCGTTGTTGTCATCCAGgtgagtttta ... tgaaatgcagCAAGTATACATGTATTTCCGTGGAAGTGGGAAGGCTGCTGAGATGAAACGT