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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgttagtcactgctatgcacttcatttctgccattttgtatcaaatgtttgacacgaggttttttgtgtggtgacagGATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCTGGTTGGCAATCATATGTTATATTTGCGCAAAAAGGCAAATATTTTCAAT

Basic information

species Oryza sativa
transcript LOC_Os02g02750.2
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g02750.3 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G466281_T03 (Zea mays), 3'ss of exon 4
gtttgtgttagtcactgctatgcacttcatttctgccattttgta---tcaaatgtttgacacgaggttttttgtgtggtgacagGATCACTAGGAAAAAGGCATAATTGTG--AACCATCCACAATTGCCTTGCTCTGGTTGGCAATCATATGTTATATTTGCGCAAAAAGGCAAAT-ATTTTCAAT
    || ||| || ||  | | | | || |||   |   ||||||   |||  |  ||||| | | |    ||||   |||||||||||||||||||||||||||| ||       |||    ||   || |||| |||| | |   | ||   | | |  | | |||   ||    | |    ||| 
----gttttaatc-ctcatcttctcatcttttgcacatgtttgtaccatcagttagttgacgcaaagc---ttgtcctgtgacagGATCACTAGGAAAAAGGCATAGTTCCTCCGTCCACGGGCATCAGCGTTGCCCTGGATTGTG-TAATCAATCACAACT-CACAAGGTGGTGCCTGACAGACAA-
















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|86497511|gb|CI140144.1|CI140144
EST:     ACATCTGTTATCCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAG                         GATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCT
genomic: ACATCTGTTATCCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAGgtttgtgtta ... gtggtgacagGATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCT
EST: gi|157650165|gb|EX449799.1|EX449799
EST:     ACATCTGTTA-CCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAG                         GATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCT
genomic: ACATCTGTTATCCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAGgtttgtgtta ... gtggtgacagGATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCT
EST: gi|88691614|gb|CI733692.1|CI733692
EST:     ACATCTGTTATCCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAG                         GATCACTAGGAA
genomic: ACATCTGTTATCCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAGgtttgtgtta ... gtggtgacagGATCACTAGGAA
EST: gi|86594261|gb|CI251133.1|CI251133
EST:     ACATCTGTTATCCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAG                         GATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCT
genomic: ACATCTGTTATCCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAGgtttgtgtta ... gtggtgacagGATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCT
EST: gi|33803552|gb|CF327651.1|CF327651
EST:     ACATCTGTTATCCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAG                         GATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCT
genomic: ACATCTGTTATCCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAGgtttgtgtta ... gtggtgacagGATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCT
EST: gi|89173678|gb|CI041571.1|CI041571
EST:     ACATCTGTTATCCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAG                         GATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCT
genomic: ACATCTGTTATCCATGAAATCACCAATGCTCTCGGGATTCATTGCTTCAGgtttgtgtta ... gtggtgacagGATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catttctgccattttgtatcaaatgtttgacacgaggttttttgtgtggtgacagGATCACTAGGAAAAAGGCATAATTGTGAACCATCCACAATTGCCTTGCTCTGGTTGGCAATCATATGTTATATTTGCGCAAAAAGGCAAATATTTTCAAT
                        gtttgac  putative branch site (score: 4)
          attttgtatcaaat  TA-rich tract