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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgtagccattttgatattgttgagcaaaattatgtttgttgaacagtcaagacttgattttcttatgatgtagaatcttttgctgtag

Basic information

species Zea mays
transcript GRMZM2G062761_T02
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os05g50120.1 (Oryza sativa), 5'ss of exon 3
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgtagccattttgatattgttgagcaaaattatgtttgt--tgaacagtcaagacttgattttcttatgatgtagaatcttttgctgtag
|||||||||||||||||||||||| |||||||||||| |||| ||||| ||||||||||| || ||||| || || || |||||||||||||||||||||||      |||  || ||||||| | |  | | ||     ||||||| ||   ||||   |       || |   ||  || | | |||
CAAGAATATTCTAGCCAATGCTGATTGCAAGCTGAAGGTTTGCGATTTCGGCCTTGCCCGAGTGTCATTTAACGATACCCCATCAGCCATATTCTGGACGgttaggcatttattaatgttgagaagatatttcttaacaatgaacagccatatcttggcatctaatgaattttccatgcttcgttctag

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA07G11470.1 (Glycine max), 5'ss of exon 3
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgtagccattttgatattgttgagcaaaattatgtttgttgaacagtcaagacttgattttcttatgatgtagaatcttttgctgtag----------------------------------------------------------------------------
 || ||||||||||| |||||||| |||||||| ||  | ||||||||||| ||||| || |||||||| |||||    |||||||| ||||||||||| |||   ||| |   |   ||||    | ||||   |  ||    |      |||   | | ||| ||| |  |         || |                                                                             
AAAAAATATTCTAGCTAATGCTGATTGCAAGCTAAAATTATGTGATTTTGGACTTGCTCGAGTTTCATTTAATGAGGACCCATCAGCTATATTCTGGACTgtaagtattctagcaa-attga-tgcacttattagttctgttttgcttctgcttttgtcttttaagatttttagctggaaagtgcaatcaaattcattatttctgttccagaatcatccttctaaatattttgctgactgattttatctactctcttactaag

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA05G33980.1 (Glycine max), 5'ss of exon 3
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgtag-----ccattttgatattgttgagcaaaattatgtttgttgaaca-gtcaagacttgattttcttatgatgtagaatcttttgctgtag-----------------------------------------------------
 || || ||||| || || ||||| ||||| || || || ||||||||||| ||||| || |||||||| |||||  |||||||||| ||||||||||| ||       ||||| ||  |   |   | |   |||  ||| |  |  | ||   |||||   |   ||    ||   |||       ||                                                        
AAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAATGATGCTCCATCAGCTATATTCTGGACTgtgagtgcaccattgtgtgaccatgttgaacggttacatttatcaattatgttctgacttttatgcttttgagtgggaaattgcaaattgccatctaggtttctccctaaacctgttgctgacttattttatctactttgaataag

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA08G05700.1 (Glycine max), 5'ss of exon 3
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgtagc--cattttgatattgttgagcaaaattatgtttgttgaacagtcaagacttgattttcttatgatgtagaatcttttgctgtag------------------------------------------------------------
 || |||||||| || || ||||| ||||| || || || ||||||||||| ||||| || |||||||| |||||  |||||||||| ||||||||||| ||     ||   |  | |      |   || | | |   || | || | | |   ||| |||  || | | | || |       || |                                                             
AAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAATGATGCTCCATCAGCTATATTCTGGACTgtgagtgcaccattgtgtgaccatgttgaactgt-tacatttatcaattatgttctgacttt--taagcttttgagtgggaaattgcaaatagccatctaggtttctccctaaacctgttgctgacttattttatctactatgaataag

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA09G30790.1 (Glycine max), 5'ss of exon 3
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgtagccattttgatattgttgagcaaa-attatgtttgttgaacagtcaa----gactt----gattttcttatg--atgtagaatcttttgctgtag-------------------------------------------------------------
 || ||||||||||| |||||| | ||||| || || || |||||||| || ||||| || |||||||| |||||  | ||||| || ||||||||||| |||   ||| |   |   |   |||   ||||| | ||||   |  |       | |||    ||||||||  ||  | ||  ||||   | || ||                                                              
AAAAAATATTCTAGCTAATGCTAATTGCAAACTAAAAATATGTGATTTCGGACTTGCTCGAGTTTCATTTAATGAGGCCCCATCTGCTATATTCTGGACCgtaagtattctagcaaattgatgcacttattatttctgttttgcttttgcttctgccttttaagattttctgctggaaagtgcaatcaaattctttatttctgttccagaatcattcttctaaacattttgctgactgattttacctgctcttactaag

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT1G73670.1 (Arabidopsis thaliana), 5'ss of exon 3
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgt-agccattt-----tgatattgttgag--caaaattatgtttgttgaacagtc-----aagacttgattttctta-tgatgtagaatcttttgctgtag
 ||||| ||||| || |||||||| |||||| ||||||||||||| ||||| || || || || || || |||||  | ||  | || || || ||||| || || |||||       | | |||  |     || ||   || |   |||| ||     |||   || |   || | |  |    | ||| || |  |||
AAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagtcatttatcaccaagactgtgaaagcttaagttgcattagggtaacattctgtttaagtgctggtggactcactcttactaactctgtttcaatag

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT1G18150.3 (Arabidopsis thaliana), 5'ss of exon 4
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgt-agccattttgatattgttgagcaaaattatgtttgttgaacagtcaagacttgattttcttatgat-gtagaatcttttgctgtag-------------
 ||||| |||||||| |||||||| |||||  ||||||| ||||||||||| || || |||||||| || || ||  | ||| | || ||||| ||||| || || ||| |   |     |||    ||   ||||  ||   |   |        ||||||  ||| | ||    || |||  | ||              
GAAGAACATTCTAGCTAATGCTGATTGCAAATTGAAGATCTGTGATTTTGGGCTGGCTCGCGTTTCTTTTAACGATGCCCCAACCGCTATATTTTGGACTgtgagtcatctaactcaatgtgaaagcaaaactgttcattaggcttcctcttaactattttcaaatgcttgtgagctcatttcgtttatatggattttgtag

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
lower sequence: AT3G18040.1 (Arabidopsis thaliana), 5'ss of exon 3
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgta-gccattt--tgatattgttgagcaaaatt-----atgtttgttgaacagtcaagacttgattttcttatgatgtagaatcttttgctgtag
 || ||||||||||||||  |||| |||||| |||||||||| || ||||| ||||| || || || || |||||  | || || || ||||||||||| ||| || | |   ||| ||  |         ||     || ||   |||    | |||  ||| |  ||  ||| | |    |  ||||| |   
TAAAAATATTCTAGCCAACTCTGATTGCAAGTTGAAGATTTGCGACTTTGGGCTTGCTCGAGTGTCCTTTAATGATGCACCTTCGGCTATATTCTGGACTgtatgctactcaatgaaatcataagtttctttttttctatattctctgatgcattaagtgttg-tgatcaaatggttttcgcttctttgcag---

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv01s0011g04920.t01 (Vitis vinifera), 5'ss of exon 3
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgtagccattttgatattgttgagcaaaattatgtttgttga-acagtcaagacttgattttcttatgatgtagaatcttttgctgtag
 || || || || || ||||| |||||||| |||||||||||||||||||| ||||| ||||| ||||| ||||| || |||||| | || || ||||| |||   || |  || || |  |   ||||||||    ||       |    ||  |||     | | |  ||    | |||  || ||
AAAAAACATCCTTGCTAATGCAGACTGCAAACTGAAGATTTGTGATTTTGGGCTTGCTCGCGTGTCATTTAATGATACCCCATCAACTATCTTTTGGACTgtatatatct--attttttgcaatgaaattatgagctttagtgttattttaacaggatgagtctgtaacttatctacattt--tgaag

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 5'ss of exon 3
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgta-gccattttg-----atattgttgagcaaaattatgtttgttga-acagtcaagac-----ttgattttcttatgatgtagaatcttttgctgtag------------------------------------------------
 || |||||||| || ||||| ||||||||| ||||||||||||||||||| ||||| || || |||||||||||  | |||||||| || |||||||| ||| |   | |||      || |  |||       |   ||| |  | || | | |||       | | | |||| |  | ||  ||  |||    |                                                  
AAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAATGATGCACCATCAGCTATTTTCTGGACAgtatgtagtcttgccaaagtactcctgacatttgctgcatttctgcatacggccgagaaaattacttagtctcttttattttatgatactttaaaatttttgaaagctagaaactttaactaatcatatttatttactttttcaaag

upper sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
lower sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgtagccattttgatattgttgagcaaaattatgtttgttgaacagtcaagacttgattttctta----tgatgtagaatcttttg-ctgtag------------------------------------------------------------------------------
 |||||| |  | || || ||||| ||||||||||| |||||||||||||| ||||| || ||  | |||| |||  | ||| | ||||| ||||||||||||     ||| |   |||| |   || |     | ||   ||  ||   | |||   |||||      ||  ||    |||||  || ||                                                                               
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgta--tggtttaaccctgttaatacaattcgaaatagt---acgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag

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|74245616|gb|DT653530.1|DT653530
EST:     GCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACG                         GATTACGTGGCCACTAGATGGTATCGAGCTCCAGAATTATGTGGCTCCNNN
genomic: GCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgtagccattt ... tttgctgtagGATTACGTGGCCACTAGATGGTATCGAGCTCCAGAATTATGTGGCTCCTTT
EST: gi|76018133|gb|DT945303.1|DT945303
EST:     GCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACG                         GATTACGTGGCCACTAGATGGTATCGAGCTCCAGAATTATGTGGCTCCTTT
genomic: GCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgtagccattt ... tttgctgtagGATTACGTGGCCACTAGATGGTATCGAGCTCCAGAATTATGTGGCTCCTTT