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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgttccttatcatctcaaaaataaaataaaataagttgttcctcatgtcggcctcttctctctagcagatatttgtttaggcttccatgttga...

Basic information

species Oryza sativa
transcript LOC_Os12g44000.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g44000.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G018447_T01 (Zea mays), 5'ss of exon 4
GTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgttccttat-catctcaaaaataaaataaaataagt---tgttcctcatgtcggcctcttctctctagcagatatttgtttaggcttccatgttga
|||||||||||||| || ||||| |||||||||||||| |||||||||||||||||||| |||||||||  || ||  ||  |||||            || ||  ||   ||   | |||||  |    | || |  || || |   ||  |  |   | |||    
GTCATTTTTCTCAATCCAGCGCCAATGCATCCACACATCTACAGCAACGGGCACATCTGCTTAGgtaaaactgctctctaggcatcttgtctgatggggaacatttgtgtgtgactcccatgtttgataatgcttttcagtagctccatggctgcggcccaatg----

upper sequence: LOC_Os12g44000.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G007381_T01 (Zea mays), 5'ss of exon 4
GTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgttcctta-tcatctcaaaaataaaataaaataagttgtt--cctcatgtcggcctcttctctctagcagatatttgtttaggcttccatgttga
|||||||||||||| || ||||| ||||||||||||||||||||||||||||||||||| |||||||||  || | | ||  |||||          | || ||  |    |  |  |||||  |    | || |  |  || | | ||     |     |||    
GTCATTTTTCTCAATCCAGCGCCAATGCATCCACACATTTACAGCAACGGGCACATCTGCTTAGgtaaaactgcttcctagccatcttgtctgatggagaacatttgcacatgactccatgtttgataatgcttttcattagctttgtggcggtggcctaatgg---

upper sequence: LOC_Os12g44000.1 (Oryza sativa), 5'ss of exon 4
lower sequence: AT4G36410.1 (Arabidopsis thaliana), 5'ss of exon 4
GTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgttccttatcatctcaaaaataaaataaaataagttgttcctcatgtcggcctcttctctctagcagatatttgtttaggcttccatgttga
|| || ||||   | || || ||  | ||||| || |||||||||||||| ||||| |||||||||||     | |             ||| | ||| |   |   |||| |  |   |     |    | ||   |  | ||  |||     | ||      
GTTATCTTTCAGCATCCAGCTCCACTTCATCCTCATATTTACAGCAACGGTCACATTTGTTTAGgtaagtacatac-------------aaacacaatgactcactctgtttcaaagtccaatgacaagacccttctatgtgttcttttgattatgcag-----

upper sequence: LOC_Os12g44000.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv18s0001g13180.t01 (Vitis vinifera), 5'ss of exon 4
GTCATTTTTCTCAACCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgttccttatcatctcaaaaataaaataaaataagttgttcctcatgt-cggcctcttctctctagcagatatttgtttaggcttccatgttga----
||  ||||| ||   || || ||  ||||||| ||||| |||||||| ||||| ||||||||||||||     |||| ||    |   | |     ||| | |  |||  |  |       |   || | ||| |   |  |||||  | | | ||  ||||       
GTTGTTTTTGTCCCGCCAGCTCCTCTGCATCCTCACATATACAGCAATGGGCATATCTGTTTAGgtaa-----ttccataattccagcacatgtttatagattttgtttctgattggacatgaattcatgtctgttttaattatttcatgatgattttatgtgattctg

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|88536811|gb|CI464600.1|CI464600
EST:     ACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: ACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|88547046|gb|CI477317.1|CI477317
EST:     CATCCACACATTTACAGCAACGGGCACATCTGTTTAN                         ATATACTGTATGATTCTTGTTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: CATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|163920049|gb|EG709843.1|EG709843
EST:     CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|13896698|gb|AU183034.1|AU183034
EST:     CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|8857593|gb|AU094911.1|AU094911
EST:     CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|88541762|gb|CI471050.1|CI471050
EST:     GGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: GGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|88375124|gb|CI523389.1|CI523389
EST:     CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|58593809|gb|CF992117.1|CF992117
EST:     CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|88521140|gb|CI448799.1|CI448799
EST:     TACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: TACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|88237642|gb|CI237491.1|CI237491
EST:     CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|88466336|gb|CI529745.1|CI529745
EST:     AACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: AACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|88536272|gb|CI466013.1|CI466013
EST:     CGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: CGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|8857008|gb|AU094326.1|AU094326
EST:     CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|86822411|gb|CI357963.1|CI357963
EST:     GGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: GGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|5851049|gb|AU078221.1|AU078221
EST:     CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|8856902|gb|AU094220.1|AU094220
EST:     CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: CCCGGCGCCGATGCATCCACACATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|88549272|gb|CI479148.1|CI479148
EST:     AACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: AACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
EST: gi|86888775|gb|CI307833.1|CI307833
EST:     ATTTACAGCAACGGGCACATCTGTTTAG                         ATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA
genomic: ATTTACAGCAACGGGCACATCTGTTTAGgtaaagttgt ... atatctgcagATATACTGTATGATTCTTGGTCACCTGCAATGACTGTCAGTTCGGTCTGCA