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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAACTTTATGAGGACAATGAGTATGCTCTCTACACGGTAACATTGTTTGCTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgccgtcctaactttttcatcaaaaacctttgtttacacttcacatttagcttttatccctagagccttaggagttccaaataacttgggacagaaattcagtcttgtttttctgtccccatcaatctggcaattctctgtcacccattaacttgtattacgttgaaatacag

Basic information

species Oryza sativa
transcript LOC_Os05g51530.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g51530.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G128995_T01 (Zea mays), 5'ss of exon 7
AAAACTTTATGAGGACAATGAGTATGCTCTCTACACGGTAACATTGTTTGCTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgccgtcctaactttttcatcaaaaacctttgtttacacttcacatt----tagcttttatccctagagccttaggagttccaaataacttgggacagaaattcagtcttgtttttctgtccccatcaatctggcaattctctgtcacccattaacttgtattacgttgaaatacag
||| || ||||| |||||||| |||||||||||||| |||||| |||||||||||||||||||||| |||||||||||||| || || || ||||| |||||||  ||              | | | | |  | | ||||||||||| | |||    | ||| |  | | |    | || |   | |   ||||  |   |    | || | ||  |                                                                  
AAAGCTCTATGAAGACAATGAATATGCTCTCTACACTGTAACACTGTTTGCTAAGGTTGTTGACAATTTTAAGGTCCGTGCTCGCGAGAAGGGTTTTCAGgtaaggtt--------------tccttgagagtcgtatgtttacactttatattaatctggctatccttctttagccttttgttatccactataagctttaatttcattttattccag------------------------------------------------------------------

upper sequence: LOC_Os05g51530.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G177912_T02 (Zea mays), 5'ss of exon 7
AAAACTTTATGAGGACAATGAGTATGCTCTCTACACGGTAACATTGTTTGCTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgccgtcctaactttttcatcaaaaacctttgtttacacttcacatttagcttttatccctagagccttag-gagttccaaataacttgggacagaaattcagtcttgtttttctgtccccatcaatctggcaattctctgtcacccattaacttgtattacgttgaaatacag
| | || ||||| ||||||||||| || ||||||||  ||||| | ||||||||||||||||||||||||||||||||||| || || || |||||||||||||  || || |    || || |  |        |   || |     || |   | ||||  ||  | |    | |   |||| ||      |||   |||                                                                               
ACAGCTCTATGAAGACAATGAGTACGCACTCTACACCATAACACTTTTTGCTAAGGTTGTTGACAACTTTAAGGTCCGTGCTCGCGAGAAGGGTTTCCAGgtaaggtttccttggacacattatgcttttttttttacattgatctggca-acccatctttagtcttttgccattcactaagtttcattcgctttgttccag-------------------------------------------------------------------------------

upper sequence: LOC_Os05g51530.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G144372_T01 (Zea mays), 5'ss of exon 7
AAAACTTTATGAGGACAATGAGTATGCTCTCTACACGGTAACATTGTTTGCTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgccgtcctaactttttcatcaaaaacctttgtttacacttcacatttagcttttatccctagagccttaggagttccaaataacttgggacagaaattcagtcttgtttttctgtccccatcaatctggcaattctctgtcacccattaacttgtattacgttgaaatacag
||| || ||||| ||||| || |||||||||||||| || ||| | ||||||||||||||||||||||||||||||||||| || || || ||||| |||||||  ||    || | |  ||| |     | |    | |    |     | ||   ||||| ||      | |     | ||     | | |||   |                                                                                 
AAAGCTCTATGAAGACAACGAATATGCTCTCTACACTGTGACACTATTTGCTAAGGTTGTTGACAACTTTAAGGTCCGTGCTCGCGAGAAGGGTTTTCAGgtaagattt---tcttgagatttacgctttacattagtctggctatcctgctttagtcttttgtc------gtccactaaattttttgtcatttgtttccag------------------------------------------------------------------------------

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|38476572|gb|CF960705.1|CF960705
EST:     CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAG                         GTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgc ... tgaaatacagGTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|29656670|gb|CB652945.1|CB652945
EST:     CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAG                         GTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgc ... tgaaatacagGTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|88762888|gb|CI772444.1|CI772444
EST:     GTGAAAAAGGTTTCCAG                         GTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: GTGAAAAAGGTTTCCAGgtaaatttgc ... tgaaatacagGTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|218479849|gb|FG959490.1|FG959490
EST:     CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAG                         GTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgc ... tgaaatacagGTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|29674593|gb|CB670868.1|CB670868
EST:     TTGACAACTTTAGCAAACAATGTTACCGTGTACGTGAAAAAGGTTTCCAG                         GTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: TTGACAACTTT-------AA-GGT-CCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgc ... tgaaatacagGTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|25802832|gb|CA758793.1|CA758793
EST:     CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAG                         GTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgc ... tgaaatacagGTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|33381011|gb|CF196354.1|CF196354
EST:     CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAG                         GTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgc ... tgaaatacagGTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|38565596|gb|CK085049.1|CK085049
EST:     CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAG                         GTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgc ... tgaaatacagGTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|58654927|gb|CK043607.1|CK043607
EST:     GTGCACGT-AAAAAGGTTTCCAG                         GTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTCA-GAAGGAGAG
genomic: GTGCACGTGAAAAAGGTTTCCAGgtaaatttgc ... tgaaatacagGTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGT-AGGAAGGA-AG
EST: gi|58590593|gb|CF988901.1|CF988901
EST:     AGGTCCGTGCACGTGAAAAAGGTTTCCAG                         GTTCGCGATTTTGAGTATAGTTCTGAGGCACAGGAAAGTAGGAAGGAAGAG
genomic: AGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgc ... tgaaatacagGTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
EST: gi|29612870|gb|CB617883.1|CB617883
EST:     CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAG                         GTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG
genomic: CTAAGGTTGTTGACAACTTTAAGGTCCGTGCACGTGAAAAAGGTTTCCAGgtaaatttgc ... tgaaatacagGTTCGCGATTTTGAGTATAGTTCTGAAGCACAGGAAAGTAGGAAGGAAGAG