Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGCTCGACCATGTCAAGGAGCTGATCAAGTGGGGCACAGATTACCTCCTCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaagccgaccatctgttaatcctgagttttcactttcctgtcccaagaaataaggcgtcagatccactcaaatatgtagagtaaacttcacagcagattttctaaatcattggtatcatatgaacttcttattgcag

Basic information

species Oryza sativa
transcript LOC_Os03g52630.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g52630.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G110735_T01 (Zea mays), 5'ss of exon 2
TGAGCTCGACCATGTCAAGGAGCTGATCAAGTGGGGCACAGATTACCTCCTCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaagccgaccatctgttaatcctgagttttcactttc-ctgtcccaagaaataaggcgtcagatccactcaaatatgtagagtaaacttcacagcagattttctaaatcattggtatcatatgaacttcttattgcag
||||||||||||| |||||||||||||||||||||| ||||| ||| ||||||| |||||||||||||| || || || || ||  |||| ||||| |||||||||||     || |||||      | |||    | | || | ||||||||||||||  | | ||||||||||  ||  |   |    ||  |  ||  |   || |   |                                
TGAGCTCGACCATATCAAGGAGCTGATCAAGTGGGGAACAGACTACATCCTCAAAACCTTCAATTCATCTGCTGACACGATAGACAGGATTGTCGCTCAGgttggtagccatagatcatcttg----cttgatggctgatttgctctgtcccaagaaattggtcatcagatccaccaaaccactgactacaacatgaacttctcgttattgcag-------------------------------

upper sequence: LOC_Os03g52630.2 (Oryza sativa), 5'ss of exon 1
lower sequence: GRMZM2G147849_T01 (Zea mays), 5'ss of exon 2
TGAGCTCGACCATGTCAAGGAGCTGATCAAGTGGGGCACAGATTACCTCCTCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaagccgaccatctgttaatcctga--gtt--ttcactttcctgtcccaagaaataaggcgtcagatcca---ctcaaatatgtagagtaaacttcacagcag-attttctaaatcattgg-tatcatatgaac--ttcttattgcag----
 |||||||||||| ||| |||||| ||||||||||| || || ||| ||||||||||||||||||| || ||||| || || ||  |||||||||| ||||||||||| | |  | ||   | | ||| ||   | |  ||  || |   || | ||| ||   | | |||||||||   |      ||      || |   |||| | |        | | |  ||  |  | ||| |||  |||| | |||      
CGAGCTCGACCATATCAGGGAGCTCATCAAGTGGGGAACGGACTACATCCTCAAGACCTTCAATTCGTCTGCCGACACGATAGACAGGATCGTCGCTCAGgttggtagcaac--aacaatagatcatcttggcggctgatttgctctgtcgtgcaaagcaactggtcatcagatccagtaccttggcatcctttctacagcacacatctgcggacagcagaccgctgactcccgtatcaacacttctcaatgcgtgcag

upper sequence: LOC_Os03g52630.2 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv12s0035g02180.t01 (Vitis vinifera), 5'ss of exon 2
TGAGCTCGACCATGTCAAGGAGCTGATCAAGTGGGGCACAGATTACCTCCTCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaagccgaccatctgttaatcctgagttttcactttcctgtcccaagaaataaggcgtcagatccactcaaatatgtagagtaaacttcacagcagattttctaaatcattggtatcatatgaacttcttattgcag
 |||||| |||||||||| ||| | ||||||||||| || |||||| | ||||| || |||||||| || || ||||| || ||  |||| || ||||||||   |  |  ||     | |    |   |   |    || |     |  |  |   |     ||    |||  | |    |  ||  || |           |||||  |                                 
GGAGCTCAACCATGTCAAAGAGATAATCAAGTGGGGAACTGATTACTTTCTCAAAACTTTCAATTCTTCTGCTGATACCATAGACAGGATGGTTGCACAGgtaaatttatacctgtggtttagccaatttagttagctacatgaagatagcttgttgttttttgtt---tccttttagtcttccaggatatatcc--------atttttca---------------------------------

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|88361349|gb|CI626453.1|CI626453
EST:     TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
EST: gi|33676216|gb|CF304455.1|CF304455
EST:     TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
EST: gi|58664223|gb|CK052909.1|CK052909
EST:     TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
EST: gi|58662741|gb|CK051427.1|CK051427
EST:     TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
EST: gi|27553984|gb|CA997884.1|CA997884
EST:     TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
EST: gi|58690204|gb|CK078891.1|CK078891
EST:     TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
EST: gi|58669612|gb|CK058298.1|CK058298
EST:     TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
EST: gi|29634446|gb|CB639455.1|CB639455
EST:     TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
EST: gi|29674435|gb|CB670710.1|CB670710
EST:     TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
EST: gi|58609592|gb|CK037625.1|CK037625
EST:     TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
EST: gi|13447512|gb|AU181006.1|AU181006
EST:     TATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
EST: gi|58674076|gb|CK062762.1|CK062762
EST:     TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAG                         GTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC
genomic: TCAAGACCTTCAATTCATCAGCCGATACTATCGATCGGATCGTCGCACAGgttggtagaa ... cttattgcagGTGGGTGTAGGTGACACCTCAAAAGGTGGTGCCCAACCTAATGACCACTAC