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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGATCATGATGTTTCAGACAAGAGTTCTGTTGGGAGGAATGAGCATGTATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgtctctttgccttgtagcatcacttttcaccaccaccaccaccatcatcatcaattgcttcgttttacag

Basic information

species Oryza sativa
transcript LOC_Os01g49770.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g49770.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G122223_T01 (Zea mays), 5'ss of exon 2
GCAGATCATGATGTTTCAGACAAGAGTTCTGTTGGGAGGAATGAGCATGTATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgt--ctctttgccttgta----gcatcacttttca-ccaccaccaccaccatcatcatcaattgcttcgttttacag
    || | ||||||||||||||||||  |  |||||||||||| ||||||||| || |||||||||||||||||||| ||||||||||||||||||||||| |||  | | ||| ||  ||    | |||  | ||   || |  ||| ||     || ||||    ||| | ||  |||
----ATAAGGATGTTTCAGACAAGAGTGTTACTGGGAGGAATGAACATGTATGACCGCTACCAGGATTGGCGCCTTGACGTTGATAACATGACATACGAGgtatgtacccccttggctcttaatttgtatctgtgtttgtccgctgccatcagt-caatgatcagacactttgcttcgcag

upper sequence: LOC_Os01g49770.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM5G843389_T01 (Zea mays), 5'ss of exon 2
GCAGATCATGATGTTTCAGACAAGAGTTCTGTTGGGAGGAATGAGCATGTATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgt--ctctttgccttgtagcatcacttttcaccaccaccaccaccatcatcatcaattgcttcgttttacag
    || ||||||||||||||||||||| |  |||||||||||| |||||| ||||| ||||||||||||||||||||||| ||||||||||||||||||||  |     | || | |||||   |    |  |||| |  ||| ||   | || | ||    ||||  ||   ||
----ATAATGATGTTTCAGACAAGAGTTTTACTGGGAGGAATGAACATGTACGATCGCTACCAGGATTGGCGCCTTGATGTAGATAACATGACATACGAGgtacgcagtcccttacgttgtat--ttgtgtagcaccgctgccatcagt-tgatgaccagacacttcccttcttag

upper sequence: LOC_Os01g49770.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA09G31170.1 (Glycine max), 5'ss of exon 3
GCAGATCATGATGTTTCAGACAAGAGTTCTGTTGGGAGGAA---TGAGCATGTATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgt-ctctttgccttgtag-------catcacttttcaccaccaccac-caccat-catcatcaattgcttcgttttacag-------------------------------
    || |||||  |||    |||| |  || |||| |||    | |      | || |  |     || ||| | |||||||||||||||||| ||||||||||  |   |||||  | |||         ||| | ||||       |   |     ||   |  | |||| | |  || | ||                                
----ATAATGATAATTCGAGGAAGAATAATGATGGGGGGACGATTTAATTCACACGACCAATTTAGAGACTGGAGACTTGATGTTGATAACATGTCATACGAGgtgagggttctttctcctgttaaattttccattatttttagtttgtaatgcattttatgtgtgtttaattacatttttctccattgttcatcaaaatttctggtttgtctaacag

upper sequence: LOC_Os01g49770.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA07G10930.1 (Glycine max), 5'ss of exon 3
GCAGATCATGATGTTTCAGACAAGAGTTCTGTTGGGAGGAA---TGAGCATGTATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttg---tctctttgcctt-----gtagcatcacttttcaccaccaccaccaccatcatcatcaattgcttc---gttttacag------------------------
    || |||||  ||||   |||| |  || |||| |||    |        | || |  |     || ||| | |||||||||||||||||| ||||||||||  |   ||| | | || |     ||  |||   ||||       |            ||  ||  ||||||    || | ||                         
----ATAATGATACTTCAAGGAAGAATAATGATGGGGGGACGATTTGATTCACACGACCAATTTAGAGACTGGAGACTTGATGTTGATAACATGTCATACGAGgtgagagatctttctcccgttaaatgttccattgtttttattttgtaatggattttgtgtctgcacatgcttctgcattgttcatcaaaatttctggtttctgtaacag

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|300215681|gb|HO088307.1|HO088307
EST:     ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAG                         GAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
genomic: ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgtctct ... cgttttacagGAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
EST: gi|29637298|gb|CB642307.1|CB642307
EST:     ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAG                         GAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
genomic: ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgtctct ... cgttttacagGAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
EST: gi|86885857|gb|CI295880.1|CI295880
EST:     ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAG                         GAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
genomic: ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgtctct ... cgttttacagGAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
EST: gi|88983372|gb|CI028608.1|CI028608
EST:     ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAG                         GAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
genomic: ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgtctct ... cgttttacagGAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
EST: gi|163920093|gb|EG709863.1|EG709863
EST:     ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAG                         GAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
genomic: ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgtctct ... cgttttacagGAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
EST: gi|38480914|gb|CF965003.1|CF965003
EST:     ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAG                         GAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
genomic: ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgtctct ... cgttttacagGAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
EST: gi|33801112|gb|CF326429.1|CF326429
EST:     ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAG                         GAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
genomic: ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgtctct ... cgttttacagGAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
EST: gi|702896|gb|D49187.1|D49187
EST:     ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAG                         GAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT
genomic: ATGATCGGTACCAGGATTGGCGCCTTGATGTTGATAACATGACATACGAGgtttgtctct ... cgttttacagGAGTTGCTTGAGCTTGGAGATAAAATAGGTTATGTCAACACTGGATTGCGT