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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACGATCTAGCAGTTCTTACAGCCAGCACAGGCCTAGAAGGCCTCCCCCTGACTTGCCATCATTGCTTCTTCATGGCCGAATTGTTTACATTGGCATGCCGgtatgaattgcaccatgttctctatgtgaaatattttcttcaagtcttactatttacatatgtggatgtaaaacatgatgacaagaatgttggtgaggtc...

Basic information

species Oryza sativa
transcript LOC_Os03g22430.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g22430.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G030072_T02 (Zea mays), 5'ss of exon 2
ACGATCTAGCAGTTCTTACAGCCAGCACAGGCCTAGAAGGCCTCCCCCTGACTTGCCATCATTGCTTCTTCATGGCCGAATTGTTTACATTGGCATGCCGgtatgaattgcacca-tgttctctatgtgaaatattttcttcaagtcttactatttacatatgtggatgtaaaacatgatga--caagaatgttggtgaggtc
||| |||||||| || || || |||||||| |||||||||||||| || || ||||| |||||||||||||| |||||||| ||||| |||||||||||||||| |  ||||||| | ||||  |||  || | |  | |     | |||||||   |||   ||||  | |  |||| | |  ||  ||  || | | | | 
ACGGTCTAGCAGCTCGTATAGTCAGCACAGACCTAGAAGGCCTCCTCCAGATTTGCCTTCATTGCTTCTTCACGGCCGAATCGTTTATATTGGCATGCCGgtataatctgcaccaatattcttgatgccaagtttcgtttcatgttattactat--gcatccatggacatcagtcatggtaaaacataaacattagggtgct-

upper sequence: LOC_Os03g22430.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA19G42180.2 (Glycine max), 5'ss of exon 2
---ACGATCTAGCAGTTCTTACAGCCAGCACAGGCCTAGAAGGCCTCCCCCTGACTTGCCATCATTGCTTCTTCATGGCCGAATTGTTTACATTGGCATGCCGgtatg------------aattgcaccatgttctctatgtgaa-atattttcttcaagtcttactatttac--------ata---tgtggatgtaaa----acatgatgacaagaatgttggtgaggtc---
   | | |||     ||| |||| | | ||| |||| |||||||| || |||||| |||| ||  ||||||| |||||  |||||||||||||||||||||| ||| |            |||||     |||| | | ||| |    || |  |||   |  | || ||||         |||   ||| | || ||     |||   ||  | || ||||  |||       
TGAAAGGTCTGT---TTCATACAACGAACACCGGCCCAGAAGGCCGCCACCTGACCTGCCTTCGCTGCTTCTCCATGGTAGAATTGTTTACATTGGCATGCCTgtaagtgttcaattgtcaattgtgtattgttttatgtgttattgcatctggttccgattctgctgtttattgcagttaatactttgttgttgcaatttgtacaacctgctatgactgtttttgaatctcag

upper sequence: LOC_Os03g22430.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA03G39570.1 (Glycine max), 5'ss of exon 2
---ACGATCTAGCAGTTCTTACAGCCAGCACAGGCCTAGAAGGCCTCCCCCTGACTTGCCATCATTGCTTCTTCATGGCCGAATTGTTTACATTGGCATGCCGgtatgaattgcaccatgtt---ctctatgtgaaat---attttcttcaagtcttactatttaca-----------tatgtggatgtaaa----acatgatgacaagaatgttggtgaggtc---
   | |||||     ||| |||| | | ||| | || |||||||| || |||||| |||| ||  ||||||| |||||  |||||||||||||||||||||| ||| |  ||  |   |||    || ||||||  ||   ||||  | |   |  | || |||              | ||  | |||||     |||   ||  | || ||||  |||       
TGAAAGATCTGT---TTCATACAACGAACACCGACCCAGAAGGCCACCGCCTGACCTGCCTTCGCTGCTTCTCCATGGTAGAATTGTTTACATTGGCATGCCTgtaagtgttcaattgtgtattgctttatgtgttattgcatttcgtgccgattctgctgtttgtgagagttaatactttgctgttgtaatttgtacaacctgctatgactgtttttgaatctcag

upper sequence: LOC_Os03g22430.1 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv14s0060g02160.t01 (Vitis vinifera), 5'ss of exon 2
---ACGATCTAGCAGTTCTTACAGCCAGCACAGGCCTAGAAGGCCTCCCCCTGACTTGCCATCATTGCTTCTTCATGGCCGAATTGTTTACATTGGCATGCCGgtatg-----aattgcaccatgttctctatgtgaaatattttcttcaagtcttactatttacatatgtggatgtaaaacatgatgacaagaatgttggtgaggtc
   | |||||  |   || ||||   |||||||||| || |||||||| || |||||||| ||  ||||||| |||||  |||| ||||||||||||||||| ||| |     || ||||  || |||||| | |||||  | |     ||       |||||   | |  | || |||  | |  ||     |||            
GGAAAGATCTGTC---TCGTACAATGAGCACAGGCCAAGGAGGCCTCCACCGGACTTGCCTTCCCTGCTTCTCCATGGGAGAATAGTTTACATTGGCATGCCAgtaagtagttaaatgcaatat-ttctctctatgaaacttatcaaaaaaaaaaatatatttctctctaggaatataattctttttggtggaaatcaaaacac----

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|3760393|gb|C97647.1|C97647
EST:     ACTTGCCATCATTGCTTCTTCATGGCCGAATTGTTTACATTGGCATGCCG                         TTGGTGCCAGCAGTTACAGAGCTTGTCGTTGCGCAGTTGATGTACCTTGAG
genomic: ACTTGCCATCATTGCTTCTTCATGGCCGAATTGTTTACATTGGCATGCCGgtatgaattg ... tgctatgtagTTGGTGCCAGCAGTTACAGAGCTTGTCGTTGCGCAGTTGATGTACCTTGAG