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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtctgaatatttgtttgtttgcttgatggtttcttgtgaaagaattatccatgtgtagattctcaactttgacatggctattttaccatgtttcacacctacattttacattgccaacagggcatgtgataagttttttcccatttacctataatactgacatacggtttcgtaaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGACAACCGGTGGTGCTAGCAATAGTGAGCTCTAAGGTCGTCTTTGATGTTC

Basic information

species Oryza sativa
transcript LOC_Os01g68710.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g68710.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G031204_T01 (Zea mays), 3'ss of exon 5
gtatggtctgaatatttgtttgtttgcttgatggtttcttgtgaaagaattatccatgtgtagattctcaactttgacatggctattttaccatgtttcacacctacattttacattgccaacagggcatgtgataagttttttcccatttacctataatactgacatacggtttcgtaaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGACAACCGGTGGTGCTAGCAATAGTGAGCTCTAAGGTCGTCTTTGATGTTC---
                                                                               ||    ||| ||  | | || | | |  |  | ||  ||       |   |||   ||  |       |  ||     || | |     |||   ||| |  | ||||| ||||| || ||  | || ||||||||||||||||||||||| || |||||| | || |||||    |||   ||     || ||   || ||||       
-------------------------------------------------------------------------------tgcgcgtttcacagtctctctctcttctacgt-acgctg------agctgtgttggaatgtccgataaagctaatggaaaaagttttgaacgtgctcg-atacgatagGCGGAGCGACTCTGGTATTCGACACGGAGCTTATCGCCGTCAACGGGAAGACATCTGGCGGTGCG---AATCCAGAAACTGAAAGTGAGCTCTGATACGATGC

upper sequence: LOC_Os01g68710.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G153991_T01 (Zea mays), 3'ss of exon 5
gtatggtctgaatatttgtttgtttgcttgatggtttcttgtgaaagaattatccatgtgtagattctcaactttgacatggctattttaccatgtttcacacctacattttacattgccaacagggcatgtgataagttttttcccatttacctataatactgacatacggtttcgtaaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGACAACCGGTGGTGCTA--GCAATAGTGAGCTCTAAGGTCGTCTTTGATGTTC
                                                                                    | || ||  | | |  ||  |  | |||| |  |||    |  | |  |  |  ||||||   ||  | |||  |    |  ||     | |  ||  ||||||||||||||| || ||||| ||||||||||||||||||||||| || |||||| |||| ||||| |  |||        |  | || ||   |   |||   
----------------------------------------------------------------------------------gcaattcacagtctcttcca--tggactttaaa--gccgtgtgctcctaggg-attttttttttgataaagctaacaggaagttatgtacgtgctcaataaatagGTGGAGCAACTCTGATCTTCGACACGGAGCTTATCGCCGTCAACGGGAAGACATCCGGCGGTGCAAAGGCAGAGAGTGACAGTGAGCTCTGATACAATGC--

upper sequence: LOC_Os01g68710.2 (Oryza sativa), 3'ss of exon 5
lower sequence: Vv00s0260g00060.t01 (Vitis vinifera), 3'ss of exon 5
gtatggtctgaatatttgtttgtttgcttgatggtttcttgtgaaagaattatccatgtgtagattctcaactttgacatggctattttaccatgtttcacacctacattttacattgccaacagggcatgtgataagttttttcccatttacctataatactgacatacggtttcgtaacca-atagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGACAACCGGTGGTGCTAGCAATAGTGAGCTCTAAGGTCGTCTTTGATGTTC-
                                                                               ||||| |||||     ||     || ||| || |     |||| |       | | || | || ||  ||    |  ||    ||  ||    |||   ||||    ||||||||||||||| ||||||||||| |||||| | || || ||||||||  || |  | || || |  |  ||    |  | || |       || |  | 
-------------------------------------------------------------------------------tggctgttttataggtttgtcttccaacagttca----accaatatatatcatca-aaatattatctgatgggacagta----tggtatgatctttgtcaaccttgcagGTGGAGCAACACTTATCTTTGACACCGAGCTTGTTGCTGTGAATGGAAAAGCATCAAGCGGAGCCAA-AGCAGATGACAGTGAGCTATAAACAGAGGAACA

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|29679614|gb|CB675889.1|CB675889
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|699803|gb|D46094.1|D46094
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|3762510|gb|AU029262.1|AU029262
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|88295466|gb|CI527829.1|CI527829
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|55413110|gb|CV725486.1|CV725486
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTAGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|55438455|gb|CV732524.1|CV732524
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCCCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|88420519|gb|CI562153.1|CI562153
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|88276548|gb|CI397350.1|CI397350
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|33659573|gb|CF282186.1|CF282186
EST:     GCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: GCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|88242499|gb|CI242348.1|CI242348
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|9055415|gb|AU097613.1|AU097613
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|88207641|gb|CI207490.1|CI207490
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|86824178|gb|CI260793.1|CI260793
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTGATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|86829393|gb|CI285036.1|CI285036
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGC-T-TCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|88460304|gb|CI529379.1|CI529379
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|55436956|gb|CV731667.1|CV731667
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|15008509|gb|AU222897.1|AU222897
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCNCCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|86824137|gb|CI260768.1|CI260768
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataagttttttcccatttacctataatactgacatacggtttcgtaaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGACAACCGGTGGTGCTAGCAATAGTGAGCTCTAAGGTCGTCTTTGATGTTC
               atttacctataata  TA-rich tract