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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_Os01g68710.2
intron # 5
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|86829393|gb|CI285036.1|CI285036
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTT--CGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|51946051|gb|CV152392.1|CV152392
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|55440369|gb|CV733494.1|CV733494
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACA
EST: gi|55436956|gb|CV731667.1|CV731667
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|55409944|gb|CV722320.1|CV722320
EST:     CCTGCAAAGATGGGTTATGGNGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: CCTGCAAAGATGGGTTATGG-GGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|55438455|gb|CV732524.1|CV732524
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCCCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|86829242|gb|CI284927.1|CI284927
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|11171677|gb|AU163906.1|AU163906
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|55436954|gb|CV731666.1|CV731666
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|55433322|gb|CV729734.1|CV729734
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|55413431|gb|CV725807.1|CV725807
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|55414253|gb|CV726629.1|CV726629
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|55441436|gb|CV734038.1|CV734038
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|33685240|gb|CF313479.1|CF313479
EST:     CCTGCAAAGATGGGTTATGGGGAGGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATTTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: CCTGCAAAGATGGGTTATGGGGAG-AGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|88242499|gb|CI242348.1|CI242348
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|88276548|gb|CI397350.1|CI397350
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
EST: gi|163928575|gb|EG711160.1|EG711160
EST:     ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAG                         GTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA
genomic: ACCTGCAAAGATGGGTTATGGGGAGAGAGGCTCCCCACCGAAGATTCCAGgtatggtctg ... taaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataagttttttcccatttacctataatactgacatacggtttcgtaaccaatagGTGGAGCAACACTAATCTTTGACACGGAGCTTATCGCCGTCAATGGAAAGACAACCGGTGGTGCTAGCAATAGTGAGCTCTAAGGTCGTCTTTGATGTTC
               atttacctataata  TA-rich tract