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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtccaatatataatcttgatcttttttatcatatatttgatttctgtgagttatgtatgtacttatatgggagatttgttggtttgttcaatcc...

Basic information

species Oryza sativa
transcript LOC_Os01g74510.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G062587_T01 (Zea mays), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtccaatat-ataatcttgatcttttt-tatcatatatttgatttct--gtgagttatgtatgtacttatatgggagat-ttgttggtttgttcaatcc
|  ||||||||||||||||| ||||||||||| ||||||||||||||||| ||||||||||||||||| ||||| |||||||| || | ||| |||||||||    ||   || |  |    |  | ||| ||  || ||   ||| |||||   || | |||   ||| |  | | ||       ||  |    ||| |     
GAAAGGATGCTGCAGCGGGCAGCGAGCAATGCATATTCATGGTGGTGGGCAAGCCACATCCGCACCAAACAGTCAAAATGGCTCGACAACCACCTCCAAGgtatttgtttcatcttgtttgatcaaccttgttgcatgatgattttcatttcacagtaaattagtaatgcatctgtctgcccttcattccttacctgtcc-----

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G438704_T01 (Zea mays), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtccaatatataatcttgatcttttttatcatatatttgatt--tctgtgagttatgtatgtacttatatgggagatttgttggtttgttcaatcc
|    ||||||||||||||| ||||||||||| ||||||||||||||||| ||||||||||||| ||| ||||| |||||||| || | ||| ||||||||| |  |    ||  ||   | |||| |||  | |    | | |||||  ||  ||| ||  | |                                     
GAAGAGATGCTGCAGCGGGCAGCGAGCAATGCATATTCATGGTGGTGGGCAAGCCACATCCGCAGCAAACAGTCAAAATGGCTCGACAACCACCTCCAAGgtaat-gaatgattcatg--catgatttttaatgtgcgctgtgtgattcgtccttgaatt-cgcag------------------------------------

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA06G10150.1 (Glycine max), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtccaatatataa-tcttgatcttttttatcatatatttgatttctgtgagttatgtatgtacttatatgggagatttgttggtttgttcaatcc
      ||| ||    | || || | |||||| ||||||||||||||||| ||||| ||| | || ||||| ||||||||||| ||      |||||||||    | |  ||||| |   |||| || | |    | |||  ||   | ||| | |||| |  || ||  |||     |  |   |  |   | |  ||| 
------ATGTTGGGAAGAGCAGCAACCAATGCATATTCATGGTGGTGGGCAAGCCATATCAGGACAAAGCAATCCAAATGGCTAGAACAAAgtctccaagg----catataatatctctctcttaatatatagcttgatacttt---tctctcttagttttccat-tatctat-cattaattccatcagaacgctttatc-

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA09G33200.1 (Glycine max), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtccaatatataatcttgatcttttttatcatatatttgatttctgtgagtt-----atgtatgtacttatatgg-gagatttgttggtttgttcaatcc
      ||| ||||| | || ||||||||||| ||||||||||||||||  ||||||||| | || ||||| || |||||| | ||     | || ||||||    |  ||  |  | ||||| || || ||| ||||||    ||      | |  |     || ||| | ||| | ||  |  |||| ||      ||||    
------ATGTTGCAGAGAGCTGCGAGCAATGCTTATTCATGGTGGTGGGTTAGCCACATCAGAACAAAGCAATCAAAATGGATGGAGCAAAACCTTCAAGgta--tgatcatcagtttatcttcattttctttttcatattgaagaacatgatcaactttaccatttatctccttttctgatggaatttttttacacattca----

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA04G10160.1 (Glycine max), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtcc-----aatatataatcttgatcttttttatcatatatttgatttctgtgagttatgtatgtacttatatgggagatttgttggtttgttcaatcc
      ||| ||    |||| || | |||||| ||||||||||||||||| ||||||||| | || ||||| ||||||||||| ||      ||||| ||||     |       | |||||| | | | |   |  | |  | | || | ||||| | |  |||   |      ||  |   | ||| ||  ||||        
------ATGTTGGGAAGGGCAGCAACCAATGCATATTCATGGTGGTGGGCAAGCCACATCAGGACAAAGCAATCCAAATGGCTAGAACAAAGTCTCCGAGgtatatatttctcttagtatata-tatagcttgatacttttctctcttagttttctattatctatcattaattccatcagaacgctttattattttgccat----

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA01G02810.1 (Glycine max), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtccaatatataatcttgatcttttt--tatcatatatt-tgatttctg--tgagttatgtatgtacttatatgggagatttgttggtttgttcaatcc
   |  ||| ||||| | |||||||||||||| ||||||||||||||||  ||||||||| | || || || || |||||| | ||     | || | |||||| | || ||| |||  || |  |||||||  ||||| | |   ||||       |     || ||| | ||| |   || |   | ||  ||||| ||    
CCAAATATGTTGCAGAGAGCGGCGAGCAATGCTTATTCATGGTGGTGGGTTAGCCACATCAGAACAAAACAATCAAAATGGATGGAGCAAAACCTTCTAGgtgatcatc-aatttatcttcattttctttttcatatcaaagaacatgatgatcaactctaccatttatctcctttttctggtggaatttttttttgtaca----

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA18G29480.1 (Glycine max), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtccaatatataatcttgatcttttttatcatatatttgatttctgtgagttatgtatgtacttatatgggagatttg-ttggtttgttcaatcc---
      ||| | ||| |    || |||||||| ||||||||||||||||| ||||| ||| | || ||||| || |||||| | ||     | ||||||||| | | |    | |   |||||| |    || |    |    ||  |  |||      |  |  | |  | ||    |||||   |   |||||  ||     
------ATGTTACAGAGAATTGCAAGCAATGCATATTCATGGTGGTGGGCTAGCCATATCAGAACAAAGCAATCAAAATGGATGGAACAAAACCTCCAAGgtcagctt----tttcccatcttgcttgcattcaaacaaggggtggatattgttttaattcaactttccaaaattcatgatttaacttaattgtttgatttgat

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: AT1G09720.1 (Arabidopsis thaliana), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtccaatatataatcttgatcttttttatcatatatttgatttctgtgagttatgtatgtacttatatgggagatttgttggtttgttcaatcc
      ||| ||||| | || ||||||||||||||||||||||||||||| |||||||| ||||| || || ||||||||||| ||   | |||||||||||       | || |    || || | |    || || || ||    ||||   |   |   |||| || |        |||| |    ||    |    
------ATGTTGCAGAGAGCAGCGAGCAATGCGTATTCATGGTGGTGGGCCAGCCACATACGCACAAAACAATCCAAATGGCTCGAACACAATCTCCAAGgta------cgatgttctttcatgttttcacgtaaca-atgttcatattcttcaatgca---atgttctga--------atttttcaactttcctag---

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: AT2G22560.1 (Arabidopsis thaliana), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtccaatatataatcttgatcttttttatcatatatttgatttctgtgagttatgtatgtacttatatgggagatttgttggtttgt---tcaatcc----
   | ||||||||| || || ||||| |||||||||||||||||||||||||| || || || ||||| || || |||||||| ||     | || ||||||  |  |||  | |  ||||    ||| |||    |  | |||| ||      ||||  |    |     | ||    |||| ||| ||||    | |||      
ACGACGATGCTGCAACGAGCTGCGAGTAATGCGTATTCATGGTGGTGGGCGAGTCATATTCGAACCAAACAATCTAAATGGCTCGAACAAAACCTTCAAGgt--ctctcc--ttttgaatccatgtctctttatataggtgtttgtttctaaaaagttgagatctttgaggtttgatctattttttgttttggatatgaatttgtag

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: AT5G10500.1 (Arabidopsis thaliana), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccg--tccaatatataatcttgatcttttttatcatatatttgatttctgtgagttatgtatgtacttatatgggagatttgttggtttgttcaatcc
   | |||||| |   | || |||||||||||||| || ||||||||||| |||||| | || ||||| || ||||||||||||||     | || |||||| ||    |   | ||   || ||    |  ||| |||  | ||  |  | | |  | ||   |  |  |||| | |                        
ATAAAGATGCTACGAAGAGCTGCGAGCAATGCGTACTCCTGGTGGTGGGCAAGCCACGTTCGAACCAAACAATCCAAATGGCTTGAAGAAAACCTTCAAGgttacatatttttacattccatattatcatcatttttcacttcttccacatatttttgata---aaatgtttatgtag------------------------

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: AT1G58210.1 (Arabidopsis thaliana), 5'ss of exon 2
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtga-----------------ccgtccaata-tataatcttgatcttttttatcatatatt--tgatttctgtgagttatgtatgtacttatatgggagatttgtt---ggtttgttcaatcc-------------------
   | |||| ||||| | || ||||||||||| ||||||||||||||||| |||||||| || || || || ||||||||||| ||   | |||| || |||                    |  | |||| ||  ||  | || || | | ||||  |||  | | | |     |||  |     |   | |  |  ||||       |  || ||  ||                     
AAAAAGATGTTGCAGAGAGCAGCGAGCAATGCTTATTCATGGTGGTGGGCAAGCCACATACGTACAAAACAATCCAAATGGCTCGAACACAATCTTCAGGgtacgtttcttgattcacatttcacctaataataatattcttattttgtgtgtcatgcattcctcagtccaaaatgttcagagcaaagaaacagagatgattaaacaaagaattattttatgttgtagatatggaagagaag

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv18s0001g07610.t01 (Vitis vinifera), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtga--ccgtccaatatataatcttgatcttttttatcatatatttgatttctgtgagttatgtatgtacttatatgggagatttgttggtttgttcaatcc
      ||| ||||  | || || | |||||| ||||| ||||||||||| ||||||||| | || |||||||| |||||||||||     | || || ||| |  |  | |  | |  |   |       |   || |||    ||||||  ||   |    ||   |     |||  |  ||  ||    | |   ||  
------ATGTTGCATAGAGCAGCAACCAATGCATATTCGTGGTGGTGGGCCAGCCACATCAGGACTAAGCAGTCTAAATGGCTTGAACAAAACCTTCATGgtaatgctattccttctccaccatgccataataccatgataatgctgattttggttcatctcctaca-atcaccatgttatgttcttttacatttgttatt-

upper sequence: LOC_Os01g74510.1 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv00s0483g00050.t01 (Vitis vinifera), 5'ss of exon 1
GGCAGGATGCTGCAGCGGGCGGCGAGCAATGCGTATTCATGGTGGTGGGCGAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtccaatatataatcttgatcttttttatcatatatttgatttctgtgagttat-gtatgtacttatatgggagatttgttggtttgttca-atcc--
      ||| | ||  | || || |||||||| ||||||||||||||||| ||||||||  | || ||||| || |||||||||||    ||||| ||||||     ||   | |  ||     |  |    | ||| ||   |    ||    |   || ||||   |||  |    | |||| |||     |||| ||||  
------ATGTTACAAAGAGCAGCAAGCAATGCATATTCATGGTGGTGGGCAAGCCACATTAGAACAAAGCAATCTAAATGGCTTGAACAACATCTTCAAGgtacttttct--tcttcaactacaacttggggtttca-atgcatttcctccaaaacacattgtataagcttgaaacataaattt-ttgtggaattcatatccaa

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|88722804|gb|CI746314.1|CI746314
EST:     GAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAG                         ATATGGAACACAGAGTGAAGTGCATGCTCTTACTCCTTGGAGAGGAAGCTG
genomic: GAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtcc ... atatatgcagATATGGAACACAGAGTGAAGTGCATGCTCTTACTCCTTGGAGAGGAAGCTG
EST: gi|88398670|gb|CI598635.1|CI598635
EST:     GAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAG                         ATATGGAACACAGAGTGAAGTGCATGCTCTTACTCCTTGGAGAGGAAGCTG
genomic: GAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtcc ... atatatgcagATATGGAACACAGAGTGAAGTGCATGCTCTTACTCCTTGGAGAGGAAGCTG
EST: gi|88724481|gb|CI747740.1|CI747740
EST:     GAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAG                         ATATGGAACACAGAGTGAAGTGCATGCTCTTACTCCTTGGAGAGGAAGCTG
genomic: GAGCCACATCCGCACCAAGCAGTCCAAATGGCTTGATAGCCATCTCCAAGgtgaccgtcc ... atatatgcagATATGGAACACAGAGTGAAGTGCATGCTCTTACTCCTTGGAGAGGAAGCTG