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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTATGTTGCAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtcttcaacactagaattctttcaatcaagattaatgcttttgtggcaccatagatgaactggtctagttgtttttagcaatgctttcttttttt...

Basic information

species Oryza sativa
transcript LOC_Os06g49430.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49430.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G306028_T02 (Zea mays), 5'ss of exon 4
GATTATGTTGCAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtcttcaacactagaattctttcaatcaagattaatgcttttgtggcaccatagatgaactggtctagttgtttttagcaatgctttcttttttt------
|||||||| ||||||||||||||||| ||||||||| ||||||| || |||||||||||||||| || |||| | || || | | |  | |   | | ||   | | ||| || ||||  | |  |    |   | || || | | |    || |    |      
GATTATGTGGCAACGAGGTGGTACCGGGCACCTGAACTATGTGGTTCTTTTTTCTCCAAAgtaatgtattcagctcttga-tgcatgaagt---ggtcaactgtgtagtg-catcatatttcacttttaatgaatattctt-gtagtatactcctacaatcatgta

upper sequence: LOC_Os06g49430.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G135904_T01 (Zea mays), 5'ss of exon 4
GATTATGTTGCAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtcttcaacactagaattctttcaatcaagattaatgcttttgtggcaccatagatgaactggtctagttgtttttagcaatgctttcttttttt-----
|| ||||| ||||| ||||||||||| ||||||||| ||||||| || |||||||||||||||| |||| |  | || ||||       |||||  |||||  | ||   |||| ||  ||| ||  |  || |||   ||   ||||| |    |  |      
GACTATGTGGCAACAAGGTGGTACCGGGCACCTGAACTATGTGGTTCCTTTTTCTCCAAAgtaatgtctccttctcttgaatgac----atcaaagttaatattgttagagcactatgtatgcacgtgcata-ttgaagttcctaatgcatgaagtggtcaattg
















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|29645354|gb|CB650361.1|CB650361
EST:     AACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTTCTCCAAA                         TACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCT
genomic: AACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTT-CTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCT
EST: gi|29664602|gb|CB660877.1|CB660877
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAA                         TACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
EST: gi|33795692|gb|CF323716.1|CF323716
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAA-                         TACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
EST: gi|58687543|gb|CK076230.1|CK076230
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAA                         TACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
EST: gi|58652759|gb|CK041439.1|CK041439
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAA                         TACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
EST: gi|58663889|gb|CK052575.1|CK052575
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAA                         TACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
EST: gi|58693904|gb|CK082591.1|CK082591
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAA                         TACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
EST: gi|58663177|gb|CK051863.1|CK051863
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAA                         TACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
EST: gi|58668308|gb|CK056994.1|CK056994
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAA                         TACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
EST: gi|66913253|gb|CX100101.1|CX100101
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTACAAA                         TACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
EST: gi|58661035|gb|CK049715.1|CK049715
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAA                         TACACTCCTGCAATTGATATCTGGAGTATTGGGTGCATATTTGCTGAGCTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
EST: gi|29627483|gb|CB632494.1|CB632494
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAA-                         TACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT
EST: gi|58668784|gb|CK057470.1|CK057470
EST:     CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAA                         TACACTCCTGCAATTGATATTTGGAGTATCGGGTGCATATTTGCTGAACTT
genomic: CAACGAGGTGGTACCGAGCACCTGAATTATGTGGCTCATTTTTCTCCAAAgtaaggtctt ... ttgcatacagTACACTCCTGCAATTGATATTTGGAGTATTGGGTGCATATTTGCTGAACTT