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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgtttcctatgccatgccatgcaaaatccttatgaccgaaaaaatactaatgtttccaatgatgttttgtcag

Basic information

species Oryza sativa
transcript LOC_Os02g35870.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g35870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G013079_T01 (Zea mays), 5'ss of exon 9
ACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgttt--cctatgc-catgccatgcaaaa---tccttatgaccgaaaaaatactaatgtttccaatgatgttttgtcag
|||||||||||||||||||||| || ||||||||||||||||| || ||||||||||| || ||||| ||||| ||||| || || ||||||||||||||||||||||     |||  |||| ||| || ||   ||  |    |  ||     ||||||| | ||| |||| |||  ||||
ACTGGAAATTTGGGGAGGAAGGAAATAAATACTTCCGTCATGCCACGGGGCAGATATATGCCATTTCGAAAGATCTCGCTACTTATATTTCAATCAACCAgtatgtttaattcatgttcatgacatacagaagtgtctgttcatctaaaggggaactaatgatgccagtgatattt-atcag

upper sequence: LOC_Os02g35870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G070708_T02 (Zea mays), 5'ss of exon 9
ACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgtttcctatgc---catgccatgcaaaa---------tccttatgaccgaaaaaatactaatgtttccaatgatgttttgtcag
|||||||||||||||||||||| || || ||||||||||||||||| ||||||||||| || ||||| ||||| || ||||| || || |||||||| | ||||||||  |  |    || | ||| |||||         ||| | | |  | |||   ||| ||| | | |  ||| |||| ||||
ACTGGAAATTTGGGGAGGAAGGAAATAAGTACTTCCGTCATGCTACAGGGCAGATATATGCCATTTCGAAAGATCTGGCGACTTATATCTCAATCAATCGgtatgtttaattcgtgttcacgacatacaaaagggtgcctgtccatctaaagggaaactaactgatgctgcaagcgatatttt-tcag

upper sequence: LOC_Os02g35870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA04G43340.2 (Glycine max), 5'ss of exon 9
ACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgtttcctatgc--catgccatgcaaaatc------cttatgaccgaaaaaatactaatgtttccaatg---atgttttgtcag-------------
  ||||| ||||| || || ||||||||||||||||| ||||| |||||||||||||| || || ||||| || || || || |||||||| |||||||||||||| |   ||    | ||| |  |  ||        ||| ||| |     |  || | ||| |    ||   | |  ||  |||             
TTTGGAAGTTTGGAGAAGAGGGGAACAAATACTTCCGACATGCAACTGGGCAGATATATGCAATCTCAAAGGATCTGGCCACTTACATTTCCATCAACCAgtatgtatatcatttttcgtgcaacacttaactggctatcttctgatctcggcaccacaactgtgtattttgtacagggattaccagatgagcaattgtt

upper sequence: LOC_Os02g35870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA13G02420.1 (Glycine max), 5'ss of exon 9
ACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatg--tttcctatgccatgccatgcaaaa-tccttatgaccgaaaaaatactaatgtttccaatgatgttttgtcag-----------------------
  ||||||||||| || || ||||||||||||||||| ||||| |||||||||||||| || || || || || || || ||||||||||| |||||||||||||  |   || | |||     | |  |  | | ||||   || |   ||  |  |   | |||| ||       |                        
TTTGGAAATTTGGAGAAGAGGGGAACAAATACTTCCGACATGCAACTGGGCAGATATATGCAATCTCTAAGGATCTGGCCACCTACATTTCCATCAACCAgtatggatacgcttttccaattagtacttagcttcctatggttgagag--tatcagaggggctaatgttgaccccatacaactgtagtgcatgatcaagaat

upper sequence: LOC_Os02g35870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA14G33700.1 (Glycine max), 5'ss of exon 9
ACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgtttcc--tatgccatgccatgcaaaatcct-tatgaccgaaa----aaatactaatgtt-----tccaatgatgttttgtcag------------
  ||||| ||||| || || ||||||||||| ||||| ||||| |||||||||||||| || || || || || || || ||||||||||| || ||||||||||  | |  | | ||||||  | | || || | ||| |  || |    |    ||||| ||     | |||  || ||   | |             
TTTGGAAGTTTGGAGAAGAGGGGAACAAATATTTCCGACATGCAACTGGGCAGATATATGCAATCTCTAAGGATCTAGCCACCTACATTTCCATTAACCAgtatggatacagttttccatgcactactaagtcatctataattgagaccagaggagctaatcttgaccatacaactatattgcatgaatagatttaagta

upper sequence: LOC_Os02g35870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GLYMA06G11330.1 (Glycine max), 5'ss of exon 9
ACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgt-------ttcctatgccatgccatgcaaaat-ccttatgaccgaaaaaatactaatgt---ttccaatgatgttttgtcag-------------
  ||||| ||||| || || ||||||||||||||||| ||||| |||||||||||||| || || ||||| ||  | || || |||||||| |||||| |||| ||       ||    | |  | |    |   ||  ||| ||| |     |  |  | |||   || |    | |  ||  |||             
TTTGGAAGTTTGGAGAAGAGGGGAACAAATACTTCCGACATGCAACTGGGCAGATATATGCAATCTCAAAGGATTTGGCCACTTACATTTCCATCAACAAgtacgtatatcatttttcgtccactacttaactggatatcttctgatctcggtaccataactgtgtatttcgcacagggattaccagattagcaattgtt

upper sequence: LOC_Os02g35870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: AT1G77810.2 (Arabidopsis thaliana), 5'ss of exon 9
ACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgt-ttcctatgccatgccatgcaaaatccttatgaccgaaaaaatact----aatgtttccaatgatgttttgtcag
| ||||||||||| ||||| || ||||||||||| || |||||||| || ||||| || || || || || || || || |  ||||| || ||||||||||| ||  | ||    | |       |||   | |   | | ||    |       || |||| |||   ||| |   |||
ATTGGAAATTTGGAGAGGATGGTAACAAATACTTTCGACATGCTACAGGACAGATCTATGCCATCTCCAAGGATCTTGCTAATTACATATCCATCAACCAgtacgtacttctgcatcctttt-cataaagagccttccatcaaatgtttgtcctaaaaggtttacaactttgtatg--cag

upper sequence: LOC_Os02g35870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: AT1G22015.1 (Arabidopsis thaliana), 5'ss of exon 9
ACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgtttcctatgccatgccatgcaaaatccttatgaccgaaaaaatact--aatgtttccaatgatgttttgtcag----------------------------
  ||||||||||| || ||||| |||||||| ||||| |||||||| || ||||| || || || ||||| || || || || ||||| || | ||||||||| ||  || |    |||   |    | |    |  |   || | ||  |  |        |||||   |    ||                             
TTTGGAAATTTGGAGAAGAAGGTAACAAATATTTCCGACATGCTACGGGACAGATTTATGCCATATCAAAGGATCTTGCCACATACATATCTAACAACCAgtaagtgaccaactttatggtttttggattttcgacaaggtaagatatgttttaccaagggaaatgagtatcaaccaaacataacatttgatgtttgacttcgcag

upper sequence: LOC_Os02g35870.1 (Oryza sativa), 5'ss of exon 9
lower sequence: Vv18s0001g04150.t01 (Vitis vinifera), 5'ss of exon 9
ACTGGAAATTTGGGGAGGAAGGGAACAAATACTTCCGTCATGCTACTGGGCAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgtttcctatgccatgccatgcaaaatccttatgaccgaaaaaatactaatgtttccaat---gatgttttgtcag----------------------
||||||| ||||| ||||| |||||||| || ||||| ||||| ||||||||||| || || || |||||||| || || || ||||| || ||||||||||| |  |    |    |   ||    |||     ||   |   |  | || |  |  |  ||    | || |||  |                       
ACTGGAAGTTTGGAGAGGAGGGGAACAAGTATTTCCGGCATGCAACTGGGCAGATTTATGCAATCTCAAAAGATCTGGCCACATACATCTCGATCAACCAgtaagaattgagt-tttttttatatggaattagcctgtttggccattttctgagctaccatatcaaaaggtcttgcaattcatcccctgggcatgattttc

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|58666495|gb|CK055181.1|CK055181
EST:     CAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCA                         GCCTATCTTACACAAATTTGCGAACGAAGATGTATCACTTGGTTCATGGTT
genomic: CAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgtttcc ... gttttgtcagGCCTATCTTACACAAATTTGCGAACGAAGATGTATCACTTGGTTCATGGTT
EST: gi|163922994|gb|EG712767.1|EG712767
EST:     CAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCA                         GCCTATCTTACACAAATTTGCGAACGAAGATGTATCACTTGGTTCATGGTT
genomic: CAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgtttcc ... gttttgtcagGCCTATCTTACACAAATTTGCGAACGAAGATGTATCACTTGGTTCATGGTT
EST: gi|29682555|gb|CB678830.1|CB678830
EST:     CAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCA                         GCCTATCTTACACAAATTTGCGAACGAAGATGTATCACTTGGTTCATGGTT
genomic: CAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgtttcc ... gttttgtcagGCCTATCTTACACAAATTTGCGAACGAAGATGTATCACTTGGTTCATGGTT
EST: gi|58666808|gb|CK055494.1|CK055494
EST:     CAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCA                         GCCTATCTTACACAAATTTGCGAACGAAGATGTATCACTTGGTTCATGGTT
genomic: CAGATATACGCGATTTCAAAAGACCTCGCGACCTACATTTCAATCAACCAgtatgtttcc ... gttttgtcagGCCTATCTTACACAAATTTGCGAACGAAGATGTATCACTTGGTTCATGGTT