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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATACTCTGAAATGATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttctgttttggttgtcagacatatgccaaactatgatttttgttttcctaaacatggaaagagagttgataggagcaaactatgtttagtttga...

Basic information

species Oryza sativa
transcript LOC_Os06g13810.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 7
ATATACTCTGAAATGATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttctgttttggttgtcagacatatgccaaactatgatttttgttttcctaaacatggaaagagagttgataggagcaaactatgtttagtttga-
|||||||||||||||||||| |||||||||||||||||  | || || || || |||||||||||||||||| |      |     | | |  |    |  ||  | || ||   |  |||    |       | |  | |     | ||    | |  |   | 
ATATACTCTGAAATGATTGGCAATGTTATGACTGATGCGAGATCCACTGGAAAATACTACCACTgtaagtttat-cagcagcaacaaaataggttgtcatttaatagttatggactagtaagttggttcctctattgaaaaattatacacaccatgtgatgccat

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA09G01050.1 (Glycine max), 5'ss of exon 7
ATATACTCTGAAATGATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttctgttttggttgtcagacatatgccaaactatg-atttttgttttcctaaacatggaaagagagttgataggagcaaactatgtttagtttga---
||||| |||||||||||||| ||||||||||  ||||| || ||||| || || || ||||| |||||||   |   ||   ||  | || | | |  | ||||  |    |      || || |   |     | | ||         ||  || ||  | | |   
ATATATTCTGAAATGATTGGAAATGTTATGATAGATGCCCGATCAACTGGAAAATATTACCATTgtaagtacataaatt---tgagaaac-tcttcagatctatatagcaattaaagactgaagaccaatgcttaatggaccaccttggacattgattgctgttacta

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 7
ATATACTCTGAAATGATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttctgttttggttgtcagacatatgccaaactatgatttttgttttcctaaacatggaaagagagttgataggagcaaactatgtttagtttga------
||||| |||||||||||||| ||||||||||  ||||| || ||||| || || || ||||| |||||||   |       |||  | || | |    | ||||   |    || |   ||  |  ||  ||    |   ||     | ||||| ||| | |        
ATATATTCTGAAATGATTGGAAATGTTATGATAGATGCCCGATCAACTGGAAAATATTACCATTgtaagtacataa---aattgagaaac-tctttagatctata--tagcattatagcaattaaagactgaagactttgagagtatacctatgcttaatgtaccacctt

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 7
ATATACTCTGAAATGATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttctgttttggttgtcagacatatgc-caaactatgatttt--tgttttcctaaacatggaaagagagttgataggagcaaactatgtttagtttga
|||||||| ||||||||||| ||||||||||  ||||| || || || || || ||||| |||||||||||| | || |  | |  | |   ||   |    ||  | |||  | | |   |  |  ||   |     |  ||||                      
ATATACTCAGAAATGATTGGAAATGTTATGATCGATGCGCGTTCCACGGGAAAATACTATCACTgtaagtttgttttctcttagcaaaatgaattttcttgatacaaatttactatatcatttcatctgttgattatctctatag----------------------

upper sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 5'ss of exon 7
ATATACTCTGAAATGATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttctgttttggttgtcagacatatgccaaactatgatttttgttttcctaaacatggaaagagagttgataggagcaaactatgttt---agtttga---
|| ||  | ||||||||||| ||||| ||||  ||||| |||||||| || || ||||| ||||||||||     | |||   |||| |   |||  |||| | | | |||   |    |        ||  || |   |  ||    | ||  | |   | | | |   
ATTTATGCAGAAATGATTGGGAATGTCATGATAGATGCTCGCTCAACTGGAAAATACTATCACTgtaagt----atattgagggtcaaagtcatg--aaaccaggttctttacctctgcattttgttcaaatgactcattttgaatttattacttattgaaatgtaatta

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|88504577|gb|CI432083.1|CI432083
EST:     ATGCACGCTCAACCGGGAANTACTACCACT                         TTATGAGGCTTATGGGACNTGCTGCTTCTCACATTACATTGGAGTGTGCTC
genomic: ATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttct ... gttcatgtagTTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
EST: gi|29689204|gb|CB685479.1|CB685479
EST:     GATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACT                         TTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
genomic: GATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttct ... gttcatgtagTTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
EST: gi|157650204|gb|EX449838.1|EX449838
EST:     GTACTACCACT                         TTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
genomic: GTACTACCACTgtaagtttct ... gttcatgtagTTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
EST: gi|58657805|gb|CK046485.1|CK046485
EST:     GATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACT                         TTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
genomic: GATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttct ... gttcatgtagTTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
EST: gi|58675628|gb|CK064315.1|CK064315
EST:     GATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACT                         TTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
genomic: GATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttct ... gttcatgtagTTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
EST: gi|2800921|gb|AA754215.1|AA754215
EST:     GGGAAGTACTACCACT                         TTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
genomic: GGGAAGTACTACCACTgtaagtttct ... gttcatgtagTTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
EST: gi|33796706|gb|CF324221.1|CF324221
EST:     GATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACT                         TTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
genomic: GATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttct ... gttcatgtagTTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
EST: gi|5003496|gb|AU068645.1|AU068645
EST:     GATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACT                         TTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC
genomic: GATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttct ... gttcatgtagTTGTGAGGCTTATGGGACGTGCTGCTTCTCACATTACATTGGAGTGTGCTC