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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTGCTGTATTTCATAATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaattttacatgccatttacctttctttcttaattgctgaacttattggaatatcttgaatag

Basic information

species Oryza sativa
transcript LOC_Os05g38150.1
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g38150.1 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G061777_T01 (Zea mays), 5'ss of exon 3
TGCTGCTGTATTTCATAATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaat---tttacatgccatttacctttctttcttaattgctgaacttattggaatatcttgaatag------------------------------------------------------------------
||||||||| |||||||||||||| ||  |||||||||| ||||||||||||||||||||||||||||||  ||  ||   |||| ||| |||||   |    |  ||       |||  | |||| |||  ||   |                                                                    
TGCTGCTGTGTTTCATAATGCAAGCACACGATTCTCTGACGGGGCTCGTTTTGGATTGGGTGCTGAGgtaggtcctatctttttatatggcatttgagtgaactctttggaaaa-gaatgtcttggcataagttacttttttttatcttttctcatgattgtttaccgttatcttcatatttctacctttgaaatatcttaaatag

upper sequence: LOC_Os05g38150.1 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G061777_T04 (Zea mays), 5'ss of exon 1
---------------------------------TGCTGCTGTATTTCATAATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaat---tttacatgccatttacctttctttcttaattgctgaacttattggaatatcttgaatag------------------------------------------------------------------
                                 ||||||||| |||||||||||||| ||  |||||||||| ||||||||||||||||||||||||||||||  ||  ||   |||| ||| |||||   |    |  ||       |||  | |||| |||  ||   |                                                                    
CACTGATGGTATATTTTTCTACAATTGCAACAGTGCTGCTGTGTTTCATAATGCAAGCACACGATTCTCTGACGGGGCTCGTTTTGGATTGGGTGCTGAGgtaggtcctatctttttatatggcatttgagtgaactctttggaaaa-gaatgtcttggcataagttacttttttttatcttttctcatgattgtttaccgttatcttcatatttctacctttgaaatatcttaaatag

upper sequence: LOC_Os05g38150.1 (Oryza sativa), 5'ss of exon 17
lower sequence: GRMZM2G375504_T02 (Zea mays), 5'ss of exon 17
TGCTGCTGTATTTCATAATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaattttacatgccatttacctttctttcttaattgctgaacttattggaatatcttgaatag----------------------------------------------------
||||||||||||||||||||| |||||  |||||||||||||||||||||||||||||||||| |||||||  |  || ||    |  | |    ||  ||  |||  | | | |   |||    ||||||   | |                                                    
TGCTGCTGTATTTCATAATGCGAGTACACGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCCGAGgtacgccctatctttggagtaaatgggattatttgattacat-cggcatgcattatgttatcttttctggtgatcatttactgttcttatcttcatatttctaccttgaatatcttgagtag

upper sequence: LOC_Os05g38150.1 (Oryza sativa), 5'ss of exon 17
lower sequence: Vv13s0019g02360.t01 (Vitis vinifera), 5'ss of exon 18
TGCTGCTGTATTTCATAATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtac--ttcaaattttacatgccatttacctttctttct-taattgctgaacttattg--gaatatcttgaatag----------------
||||||||| ||||| ||||| || || ||||| | ||||||||||||||||||| | || || ||||||   ||||| |   || |    |  || ||  |   | |  |||  |  ||||     ||   | || | |                  
TGCTGCTGTCTTTCACAATGCTAGCACAAGATTTTGTGATGGGGCTCGTTTTGGACTTGGGGCCGAGgtatgtttcaattaccacgtttattggacattaatccatgtggttgaggtccttacccctgatggttttcatttttcttaatgctgaatag

upper sequence: LOC_Os05g38150.1 (Oryza sativa), 5'ss of exon 17
lower sequence: PP1S22_40V6.2 (Physcomitrella patens), 5'ss of exon 18
TGCTGCTGTATTTCATAATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaatt-ttacatgc---catttacctttctttcttaattgctgaacttattggaatatctt---gaatag-----------------------
||| ||||||||||||||||| |||||  | || |||||||| |||||||||||  | ||||||||||| | |  | || || | | |   |||| |   |      |  |    |  |||| ||  |    ||    | || |                       
TGCCGCTGTATTTCATAATGCCAGTACCCGCTTTTCTGATGGTGCTCGTTTTGGGCTTGGTGCTGAGgtgcgtatacttctttcctacgtgcattgatggtggaacatgtaactttcgactttttatacctcctcatggcatggctgtgtaatttttttttcttatt

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|88261515|gb|CI365091.1|CI365091
EST:     ATGCAAGTACCAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTTAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTTGACCACTGGGTGTTGAA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|87029670|gb|CI257465.1|CI257465
EST:     ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|88262529|gb|CI366303.1|CI366303
EST:     TCTGATGGGGCTCGTTTTGGATTTGGTGCTGAG                         G-TGGCATAAGCACA-GGC-TAGCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: TCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|86431434|gb|CI085045.1|CI085045
EST:     ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGTACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|25798187|gb|CA754084.1|CA754084
EST:     ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|163917821|gb|EG712147.1|EG712147
EST:     ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|88261814|gb|CI365390.1|CI365390
EST:     ATTCTCTGATGGGGCCTCGTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCATATCCATGCCCAT-GACCAGTGGTTGTTGAA
genomic: ATTCTCTGATGGGG-CTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|88261913|gb|CI365489.1|CI365489
EST:     ATGCAAGTACGAAATTCTCTGAT-GGGCTCGTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGGCCCGT-GACCAGTGGGTGTTGA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCAT-GCCCGTGGACCAGTGGGTGTTGA
EST: gi|89193653|gb|CI116286.1|CI116286
EST:     ATGCAAGTACGAGATTCTCTGATGGGGCTCTTTTTGGATTGGTTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|66915778|gb|CX102626.1|CX102626
EST:     ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|88262625|gb|CI366399.1|CI366399
EST:     ATGCAACTACGAGATTCTCTTATGGGGCTCCTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|88251765|gb|CI350193.1|CI350193
EST:     ATTCTCTGAT-GGGCTCATTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAAATGGGTGTTGA
genomic: ATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACC-AGTGGGTGTTGA
EST: gi|86887353|gb|CI313256.1|CI313256
EST:     ATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: ATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|89178281|gb|CI391460.1|CI391460
EST:     ATGCAAGTACGAGATTCTCTGATGGGGCTCCTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|89187311|gb|CI047378.1|CI047378
EST:     ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|88274920|gb|CI388378.1|CI388378
EST:     TTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: TTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|86851167|gb|CI312568.1|CI312568
EST:     ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: ATGCAAGTACGAGATTCTCTGATGGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|88485232|gb|CI422503.1|CI422503
EST:     TTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: TTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|88253863|gb|CI352489.1|CI352489
EST:     TGCAAGTACGAGATTCTCTGATGGGGGCTCGTTTTGGATTGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: TGCAAGTACGAGATTCTCTGAT-GGGGCTCGTTTTGGATTGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
EST: gi|88272298|gb|CI386752.1|CI386752
EST:     TGGGTGCTGAG                         GTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA
genomic: TGGGTGCTGAGgtacttcaaa ... tcttgaatagGTTGGCATAAGCACAGGGCGTATCCATGCCCGTGGACCAGTGGGTGTTGAA