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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTTTATTGGATTAGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTGgtaagctccctacctcctatcttgcatttattatctgaagcttctcttcatacctagcaataccaaccggacgaacaacgtaaacatttgaaccgagtcacattttcgtgtcgtcgatcacag

Basic information

species Oryza sativa
transcript LOC_Os02g06840.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G132866_T02 (Zea mays), 5'ss of exon 9
CACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTTTATTGGATTAGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTGgtaagctccct----acctcctatcttgcatttattatctgaagcttctct--tcatacctagcaatacca-accggacgaacaacgtaaacatttgaaccgagtcacattttcgtgtcgtcgatcacag-----------------------------------------------
|||||||| ||||| || || ||||| ||||||  |||||| || ||  ||||||| ||||||||||| |||||||| ||||| ||||| |||||||||||| || |   |    || || |  |    | | |  | || |||||| | |  ||||   |  | |  ||   ||    |||   |        |  |||   |         | ||  |  || ||  |                                               
CACAAGTACATAAACGAAGACGTTTCGTTAGGATCTTGGTTCATCGGGCTAGATGTTGAGCATATCGATGACCGGAGGCTTTGCTGTGGCACTCCGCCTGgtgagttttttcatcacttcatgcccctgactgacaaactcaagcttgtttgttcatcattcacgaggccgcgccatttgaattgctc---ttctgaaacatggctttgggaacctgctgctgaacaatgccaactatttttcatggagcctcatcttatgacgcctttaaccacag

upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA06G46230.2 (Glycine max), 5'ss of exon 10
CACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTTTATTGGATTAGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTGgtaagctccctacct-----cctatcttgcatttatt-atctgaagcttctcttcatacctagcaataccaaccggacga----acaacgta--aacatttgaaccgagtcacattttcgtgtcgtcgatcacag
|||||||||   || |||||||| ||| |||||   |||||||||||| | ||||| |||||||| || || || |||||||||||||| ||||| ||||||||   |  | |||       ||  |  || | | | || | ||   |   |     | || || || |     |        ||||| ||  |  | |||       |  ||  || ||        |  |||
CACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGCACTCCTCCTGgtaaatacttttcctgaatatataaatcacagtgactcatttaaatgattgatgtgatcataccattatctgtttggtttgtttacaacttattattaattgt-taacattgcaaattggttattattcttgcag

upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 11
lower sequence: GLYMA12G10520.1 (Glycine max), 5'ss of exon 10
CACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTTTATTGGATTAGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTGgtaagctccctacctcctatcttgcatttattatctgaagcttctcttcatacctagcaataccaaccggacgaacaacgtaaacatttgaaccgagtcacattttcgtgtcgtcgatcacag
|||||||||   || |||||||| ||| |||||   |||||||||||| | ||||| |||||||| || || || |||||||||||||| ||||| ||||||||   |  | |||   |   |  |  |  |||   |  ||| |||   ||  | |   ||| ||    |  |  ||     | |||  ||    || |   || |                
CACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGCACTCCTCCTGgtaaatacttttccta--aatatataaatcatattgaatccttatctgtttagtttgtt-tacaaatt--attattaattgttaaattgcaaattggttattcttgcag--------------

upper sequence: LOC_Os02g06840.2 (Oryza sativa), 5'ss of exon 11
lower sequence: Vv19s0090g00560.t01 (Vitis vinifera), 5'ss of exon 10
CACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTTTATTGGATTAGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTGgtaagctccctacctcctatcttgcatttattatctgaagcttctcttcatacctagcaataccaaccggacgaacaacgtaaacatttgaaccgagtcacattttcgtgtcgtcgatcacag
|||||||||   ||||||||||||||||| |||  |||||||||||| || || |  |||||||| || |||||| |||| ||||| ||||| || || |||||  |    ||   |||  ||  | |   | | |  ||||     | |  ||| |   || |  |            ||      |||     | | ||   |  |               
CACAAGTATGCTAATGAGGATGTTTCATTGGGATCTTGGTTTATTGGTTTGGACGCAGAGCATATTGATGACCGGCGACTGTGTTGCGGTACCCCACCAGgtaatgttataacagactagtttatagt--ctctgtagagct----atgaatcctggttttagcccctctttagttgttgtggt--gttggttaaaattaccaatcag---------------

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|29682551|gb|CB678826.1|CB678826
EST:     AGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTG                         ATTGCGAGTGGAAAGCTCAGGCGGGGACCACCTGCGCCGCGTCATTCGACT
genomic: AGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTGgtaagctccc ... tcgatcacagATTGCGAGTGGAAAGCTCAGGCGGGGAACACCTGCGCCGCGTCATTCGACT
EST: gi|86868611|gb|CI332988.1|CI332988
EST:     AGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTG                         ATTGCGAGTGGAAAGCTCAGGCGGGGAACACCTGCGCCGCGTCATTCGACT
genomic: AGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTGgtaagctccc ... tcgatcacagATTGCGAGTGGAAAGCTCAGGCGGGGAACACCTGCGCCGCGTCATTCGACT
EST: gi|88274436|gb|CI394842.1|CI394842
EST:     AGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTG                         ATTGCGAGTGGAAAGCTCAGGCGGGGAACACCTGCGCCGCGTCATTCGACT
genomic: AGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTGgtaagctccc ... tcgatcacagATTGCGAGTGGAAAGCTCAGGCGGGGAACACCTGCGCCGCGTCATTCGACT
EST: gi|29657303|gb|CB653578.1|CB653578
EST:     AGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTG                         ATTGCGAGTGGAAAGCTCAGGCGGGGAACACCTGCGCCGCGTCATTCGACT
genomic: AGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTGgtaagctccc ... tcgatcacagATTGCGAGTGGAAAGCTCAGGCGGGGAACACCTGCGCCGCGTCATTCGACT
EST: gi|87006638|gb|CI295021.1|CI295021
EST:     AGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTG                         ATTGCGAGTGGAAAGC
genomic: AGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGTACTCCGCCTGgtaagctccc ... tcgatcacagATTGCGAGTGGAAAGC