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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGGTGGAAAGGATAATGCAAATGAAGATGGTCCTGAAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctcccatttctgaaacaaatttctttttgttttgtgctgtattttgttgtttttccataccagtaacgtttctgcctcttatatttactag

Basic information

species Oryza sativa
transcript LOC_Os11g40510.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM5G835213_T02 (Zea mays), 5'ss of exon 10
AAGGTGGAAAGGATAATGCAAATGAAGATGGTCCTGAAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaac-ctctcccatttctgaaacaaatttctttttgttttgtgct-gtattttgttgtttttccataccagtaacgtttctgcc--tcttatatttactag------------------------
||  |||||| || ||| |||||||||||||||||||||| ||||| ||||  || |||||||||||||||||||||||||| || |||   |||| ||| |     | |   | ||| | | |  |||||| || ||| | | | | |     |        ||| ||      || | |||| |                          
AATCTGGAAAAGAGAATCCAAATGAAGATGGTCCTGAAAATAACCCTCAGTTTACTACTGTTTATGTTGGCAATCTTCCTCACGAGgtattactcttccaatagaacagctgctgtctatgtttactgtgcttgtgtttggctttctatttgctcttaccttttttttgttagctttctttttattgtctaatttgtcttattttttttcag

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv09s0002g00880.t01 (Vitis vinifera), 5'ss of exon 10
AAGGTGGAAAGGATAATGCAAATGAAGATGGTCCTGAAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctcccatttctgaaacaaatttctttttgttttgtgctgtattttgt----tgtttttccataccagtaacgtttctg--cctcttatatttactag--------
||| ||| || || |  |||| | | || | |||||| |||||||| ||||| || ||||||||||| ||||||||| |||  || |||      |   |  |  |||    |  ||||||  ||| |    |  ||| |    || |||  |||  || |||| | |      |  || | || |   |        
AAGATGGTAAAGAGACAGCAACTAATGAGGCTCCTGACAACAACCCTCAGTATACAACTGTTTATGTGGGCAATCTTGCTCCAGAGgtaggaaa-caattcgccaaaaattttccctttttactttatttatttgtttatgctttggtttggcatctcattaacttgtgaaaatcctttttgttcatctgctatgcag

upper sequence: LOC_Os11g40510.1 (Oryza sativa), 5'ss of exon 10
lower sequence: EFJ28907 (Selaginella moellendorffii), 5'ss of exon 9
----------------AAGGTGGAAAGGATAATGCAAATGAAGATGGTCCTGAAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctcccatttctgaaacaaatttctttttgttttgtgctgtattttgttgtttttccataccagtaacgtttctgcctcttatatttactag
                 | | |||  ||   |||||| |  |||||||||||||||||| ||||||| |||||| || || ||||| ||| |  | || || || |  |     |  |   |   | | |  ||      ||    ||| |||| |  |||| |||                                  
CAATCACGATGAACAACATGAGGATGGGGCTATGCAATT--AGATGGTCCTGAAAACAATCCACAGTTCACGACAGTATACGTTGGTAATTTAGCGCACGAGgtcagttgaaggacataacagttacagtggttaagacgtt---ttgtgtttt-taattttcccag---------------------------------

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|218488516|gb|FG953157.1|FG953157
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|29641559|gb|CB646566.1|CB646566
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|218492528|gb|FG964892.1|FG964892
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|88690783|gb|CI734862.1|CI734862
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|218488001|gb|FG950016.1|FG950016
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGNT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|88689298|gb|CI732874.1|CI732874
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|58688359|gb|CK077046.1|CK077046
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATG
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATG
EST: gi|58687280|gb|CK075967.1|CK075967
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTT
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTT
EST: gi|29640531|gb|CB645540.1|CB645540
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|58602505|gb|CK013033.1|CK013033
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCCACAGCAATGATGTGCACAGATTTTTCCAT
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCAT
EST: gi|87019113|gb|CI297314.1|CI297314
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|33680119|gb|CF308358.1|CF308358
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGGTTGGTTC
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGG-TTGGTTC
EST: gi|218498744|gb|FG958423.1|FG958423
EST:     GGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: GGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|88691922|gb|CI735497.1|CI735497
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|88572117|gb|CI663688.1|CI663688
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGAT
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGAT
EST: gi|58587445|gb|CF985753.1|CF985753
EST:     CTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: CTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|218482201|gb|FG960522.1|FG960522
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|218500911|gb|FG960833.1|FG960833
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|58597389|gb|CK007917.1|CK007917
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTCA
EST: gi|58606512|gb|CK034545.1|CK034545
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCCACAGCCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTC
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGC-AATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGGTTC
EST: gi|86596642|gb|CI286555.1|CI286555
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTC
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTC
EST: gi|87004665|gb|CI300987.1|CI300987
EST:     AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGAT                         GTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGG
genomic: AAAACAACCCACAGTACACGACTGTTTATGTTGGCAATCTTCCTCATGATgtaacctctc ... tatttactagGTCAACAGCAATGATGTGCACAGATTTTTCCATTCACTTGGGGTTGG