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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTTAACAGTTGTTTCTTTTGAGGGCTGCTGGATTTTTGCTGCCATGCTATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgactgttcgaaatccttttgttcttttatgtatccgcaatccacaggcaaaaaatattccagattatctatagcttgctattttgcacttttga...

Basic information

species Oryza sativa
transcript LOC_Os02g36740.7
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g36740.7 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G156734_T01 (Zea mays), 5'ss of exon 6
TCTTTAACAGTTGTTTCTTTTGAGGGCTGCTGGATTTTTGCTGCCATGCTATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgact--gttcgaaatccttttgttcttttatgtatccgcaatccacaggcaaaaaatattccag-attatctatagcttgctattttgcacttttga
           | ||||||||||| || |||||||||||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||||||||||||||| ||  || | ||      |  |||||| |||| |   |  |    || | |   |      || |  |   ||  |  | || | | ||       
----------CTATTTCTTTTGAGAGCGGCTGGATTTTTGCTGCCATGCTATATTATGGCTTGGGCTATTAGTATCATGCAGCGTCAAAGACAAAGACAGgttggtggctcggtgctaatggaaatgtttctttcatgtgtatactgtattgagtctattgactcctgaggaaaaagaattccaggatactattcatacc---

upper sequence: LOC_Os02g36740.7 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G118957_T05 (Zea mays), 5'ss of exon 3
TCTTTAACAGTTGTTTCTTTTGAGGGCTGCTGGATTTTTGCTGCCATGCTATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgact-------gttcgaaatccttttgttc------ttttatgtatccgcaatccacaggcaaaaaatattccagattatctatagcttgctattttgcacttttga
           | ||||||||||| || |||||||||||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||||||||||||||| ||         | |||||  || | ||       | |  |||||   |  |  || |  || || |   | | | ||| |||| || || ||             
----------CTATTTCTTTTGAGAGCCGCTGGATTTTTGCTGCCATGCTATATTATGGCTTGGGCTATTAGTATCATGCAGCGTCAAAGACAAAGACAGgttggtggctcggtgccaatggaaatgtttctctttcatgtgtatactgtattgacttttgacggaaaagaattccacgaaactatttatacctagc-atg------------

upper sequence: LOC_Os02g36740.7 (Oryza sativa), 5'ss of exon 6
lower sequence: AT2G02960.2 (Arabidopsis thaliana), 5'ss of exon 7
TCTTTAACAGTTGTTTCTTTTGAGGGCTGCTGGATTTTTGCTGCCATGCTATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtg--------actgttcgaa--atccttttgttcttttatgtatccgcaatccacaggcaaaaaatattccagattatctatagcttgctattttg-cacttttga----
           |  | ||  |  | |||||||||||| | || ||||||||||||||||||||||| || |||||  | || || | |||||| ||||||||| ||         |||  |  ||  ||  ||  |  |  |  | | |      | |      |  ||  |  |    | |    || |    || | |  | |  ||||    
----------CTTGTCCTGCTCCGAGCTGCTGGATTTCTTCTTCCATGCTATATCATGGCTTGGGCCATCAGTATTCTACAGCGCCGAAGACAGAGACAGgttagtagtataagaactcatgcaaggatttttccggacagtcttttttttttcttactgttttatgaatcaaactgagtcactggtatcgacttaatgtaacccgattgaacag

upper sequence: LOC_Os02g36740.7 (Oryza sativa), 5'ss of exon 6
lower sequence: AT5G62460.1 (Arabidopsis thaliana), 5'ss of exon 7
TCTTTAACAGTTGTTTCTTTTGAGGGCTGCTGGATTTTTGCTGCCATGCTATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgactgttcgaaatccttttgttcttttatgtatccgca-atccacaggcaaaaaatattccagattatctatagcttgctattttgcacttttga
           | ||  |  |  | || ||||| ||| | || || || || |||||||||||||||||||||||  | ||||||| |||||||||||||||   | | | || | ||          | |  ||  | ||     |    | ||  | | |  ||  | || | |  |  |                   
----------CTTTTCATGCTTCGAGCCGCTGGTTTTCTCCTCCCGTGTTACATCATGGCTTGGGCTATTAGTATATTACAACGTCGAAGACAAAGACAGgtatataaatctttggaaaaacaaaacacataaataaacccatgtgtatgtatgctcata-ttctcgtgtttttgtgaaaatcag----------------

upper sequence: LOC_Os02g36740.7 (Oryza sativa), 5'ss of exon 6
lower sequence: AT2G02960.5 (Arabidopsis thaliana), 5'ss of exon 5
TCTTTAACAGTTGTTTCTTTTGAGGGCTGCTGGATTTTTGCTGCCATGCTATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtg--------actgttcgaa--atccttttgttcttttatgtatccgcaatccacaggcaaaaaatattccagattatctatagcttgctattttg-cacttttga----
  | |   || |  | ||  |  | |||||||||||| | || ||||||||||||||||||||||| || |||||  | || || | |||||| ||||||||| ||         |||  |  ||  ||  ||  |  |  |  | | |      | |      |  ||  |  |    | |    || |    || | |  | |  ||||    
CTTATTTTAGCTTGTCCTGCTCCGAGCTGCTGGATTTCTTCTTCCATGCTATATCATGGCTTGGGCCATCAGTATTCTACAGCGCCGAAGACAGAGACAGgttagtagtataagaactcatgcaaggatttttccggacagtcttttttttttcttactgttttatgaatcaaactgagtcactggtatcgacttaatgtaacccgattgaacag

upper sequence: LOC_Os02g36740.7 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv17s0000g06230.t01 (Vitis vinifera), 5'ss of exon 7
TCTTTAACAGTTGTTTCTTTTGAGGGCTGCTGGATTTTTGCTGCCATGCTATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgactgttcgaaatccttttgttcttttatgtatccgcaatccacaggcaaaaaatattccagatta---tctatagcttgctattttgcacttttga------
           | || ||  |  | |||||||| ||  | || || ||||| || ||||| |||||||| |||||  |||| |||| |||||||||||||||| |||  ||        | ||   || || |||  |     |||    ||  |||||||||||    | |    |||| | | | |||     |      |      
----------CTTTTCCTGCTTCGAGCTGCTGGTTTCCTTCTCCCTTGCTACATTATGGCCTGGGCTATCAGTATATTGCAGCGTCGAAGACAAAGACAGgttagtgtttgg-------ctttgcatttttgtatagaat-aaaatatgaagagaaaaaatattctccttcaggacctatgg-tgggtatgccaaaagaaaaaatgcag

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|3767600|gb|AU031627.1|AU031627
EST:     CTTGGGCTATTAGTATCATGCAACGTCAAAGACCAAAGACAG                         GAAGAAGCAATGCTTCTACCCAACTGAAGTGGCAATCATACTCCACCGAA
genomic: CTTGGGCTATTAGTATCATGCAACGTCAAAGA-CAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTA-CCAACTGAAGTGGCAATCATACTCCACCGAA
EST: gi|86883386|gb|CI337998.1|CI337998
EST:     ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAG                         GAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
genomic: ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
EST: gi|33809701|gb|CF330740.1|CF330740
EST:     GTCAAAGACAAAGACAG                         GAAGAAGCAATGCTTCTACCAACTGAGGTGGCAATCATACTCCACCGAAAT
genomic: GTCAAAGACAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
EST: gi|86869793|gb|CI316521.1|CI316521
EST:     ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAG                         GAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
genomic: ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
EST: gi|88441525|gb|CI554749.1|CI554749
EST:     ATTAGTATCATGCAACGTCAAAGACAAAGACAG                         GAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
genomic: ATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
EST: gi|88269118|gb|CI380416.1|CI380416
EST:     ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAG                         GAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
genomic: ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
EST: gi|3766998|gb|AU031108.1|AU031108
EST:     ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGNCAG                         GAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCCATACTCCACCGAAA
genomic: ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTACCAACTGAAGTGGCAAT-CATACTCCACCGAAA
EST: gi|86887217|gb|CI326032.1|CI326032
EST:     ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAG                         GAAGAAGCAATGCTTGTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
genomic: ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
EST: gi|88479704|gb|CI416975.1|CI416975
EST:     ACGTCAAAGACAAAGACAG                         GAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
genomic: ACGTCAAAGACAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
EST: gi|86835610|gb|CI348067.1|CI348067
EST:     ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAG                         GAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
genomic: ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
EST: gi|88240577|gb|CI239739.1|CI239739
EST:     ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAG                         GAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
genomic: ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
EST: gi|88428597|gb|CI553119.1|CI553119
EST:     ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAG                         GAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT
genomic: ATATCATGGCTTGGGCTATTAGTATCATGCAACGTCAAAGACAAAGACAGgttggtgact ... ggtgaatcagGAAGAAGCAATGCTTCTACCAACTGAAGTGGCAATCATACTCCACCGAAAT