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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacag

Basic information

species Zea mays
transcript GRMZM2G089630_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G089630_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g40090.4 (Oryza sativa), 5'ss of exon 2
GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatt-tgttcgctgctatttgcttcgacag
||||  || || ||||| |||||||||||||| || || ||||| ||||||||||||||||||||||| || |||||||| || |||||||||||||| ||||||||       ||    ||  ||   |    |  |  |   |  ||||||  | | | ||         |  | |  | |  |  ||||                      ||   |||||| | ||||||   |||||||| |||  | || | |||||  |||   |   | | || ||   |||
GCAGTGCTGGATGCTGGAGCATGGATGTTCAACGTTGTGACATCAGTTGGTATCATCATGGTCAACAAGGCATTAATGGCCACACATGGTTTTAGTTTTGgtaagacatgctataattcctcactc--gtggttgaat-tgtcaagaatgccttgtccgcacg---------tcttatggatagttggacta----------------------aaccgaactatcgttgtgcagcaaaccagtcagatt-ttttgtgctaatgatgtgttccattgtgtgtttgtgcag

upper sequence: GRMZM2G089630_T03 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os05g12490.1 (Oryza sativa), 5'ss of exon 2
GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacag
|||||| |||| ||||| || |||||||||||  | || ||||| ||||||||||||||||||||||| ||||||||||| || |||||||||||||| |||| ||         |   | | ||  |||   | | || | ||  |||  ||     |   |  ||| |       ||    ||| ||| ||    |||      || | | |       |||| ||| || | ||                                                    
GCAGCATTAGATGCTGGAGCTTGGATGTTCAACATTGTGACATCTGTTGGTATCATCATGGTCAACAAGGCCTTAATGGCTACACATGGTTTTAGTTTTGgtacgataaa--ttgataatgctttattatttactcatatgtgt--gatcacttggaaagatgaatctgtaacaaactcagctactgaac-acatgcttgt-----actaatatgggggtgctattgct-tgtacag----------------------------------------------------

upper sequence: GRMZM2G089630_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA02G08700.1 (Glycine max), 5'ss of exon 2
GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacag
|| ||  | || || |  ||||||||||||||||| || ||||| ||||| |||||||| || |||||||| || |||||  |  |||| || ||||| |||||   |   || |   ||   || ||  |    |||    ||    || | ||||| ||       |  |     ||| |   |||  |   || ||          | | | |||   ||||  |||     ||                                                    
GCTGCCGTGGATGCAGCTGCATGGATGTTCAATGTTGTTACATCTGTTGGAATCATCATTGTAAACAAAGCTTTGATGGCCTCTTATGGCTTCAGTTTTGgtaaattc---ccta---ttcaatttcttaatggacgtttctgt-tattggcaaattc-cctatacgatcatgc---tctgatgttaattttttatctt--------ttaatgtgatttgtctattactgcttgcag----------------------------------------------------

upper sequence: GRMZM2G089630_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA16G27820.1 (Glycine max), 5'ss of exon 1
GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaaga-ccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgc--gtctttgtttctgtctaaaactaaactacgattttgctgagaacc---agtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacag
|| ||  | || || |  ||||||||||||||||| || ||||| ||||| |||||||| || |||||||| || ||||| ||  |||| || ||||| |||||   || |   |||  | |   |   ||  | |  ||   |||   ||  |  ||  || |   || | || |  ||   |       |     |||||  |   | |    | | | |||   ||||  |||      |   ||   | | |                                       
GCTGCTATGGATGCAGCTGCATGGATGTTCAATGTTGTTACATCTGTTGGAATCATCATTGTAAACAAAGCTTTGATGGCCACTTATGGCTTCAGTTTTGgtaaattccttattcaatttcttaatgacatttctgt-tattggtatactgagtcttttcccaggtagtatatgatcatgatcatgctctgatgttaattttttttttatcttttaatgtgatttgtctattactgcttgcggccacaacattaacag-------------------------------------

upper sequence: GRMZM2G089630_T03 (Zea mays), 5'ss of exon 2
lower sequence: AT4G39390.2 (Arabidopsis thaliana), 5'ss of exon 2
GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacag
|| ||| |||||  ||   ||||| | |||||||| || || |||||||| |||||| | || |||||||| |||||||| ||  |||| |||||||||||| ||    |   |     |      || |  ||  | |  | ||     |    || ||    || |    |     |||||||| |  || ||| |   |       | | | ||  |                                                                     
GCGGCATTAGACATTGCATCATGGCTATTCAATGTGGTTACTTCCGTTGGAATCATCCTCGTTAACAAAGCTTTAATGGCTACTTATGGCTTTAGTTTCGgtgagtttttcttcttttatcacaaactcttcccttgaaatattagtcaacggggttgactt--gtttcaactcactactaaaactgatttaagatctgtttc----ttaatgtgatacag--------------------------------------------------------------------

upper sequence: GRMZM2G089630_T03 (Zea mays), 5'ss of exon 2
lower sequence: AT4G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacag
||| || |||| ||||  || |||||||||||||| || || || |||||||||||||| || || ||||| |||||||| ||  |||| ||||| || ||||          |  | | |   ||  |        ||| |  |  ||    || | |   |  |  |  ||||  | | ||   |                                                                                                      
GCAACATTAGATGCTGCTGCTTGGATGTTCAATGTTGTTACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCTACTTATGGCTTTAGCTTTGgta----------cttcttcttcatcaaaaccttatttacaatcat-atcttcaaattatttgtctaatattttcaatttcaatgcag-----------------------------------------------------------------------------------------------------

upper sequence: GRMZM2G089630_T03 (Zea mays), 5'ss of exon 2
lower sequence: AT1G34020.1 (Arabidopsis thaliana), 5'ss of exon 2
GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacag
|||||  |||| ||||  || |||||||||||||||||||| || |||||||||||||| || || ||||| |||||||||||  |||||| ||| || |||||     |       |||| | || ||            |  ||| |  ||     ||| |   || |  ||||   |     | |  ||  || |||| |                                                                                      
GCAGCCGTAGATGCTGCTGCGTGGATGTTCAATGTCGTCACTTCTGTTGGTATCATCATTGTTAATAAAGCTTTAATGGCGACTTATGGTTATAGCTTTGgtaaagatttct-----cttttgctcttac---------ttaagacgttttctttgaaacctgtagctattcttctaatttg--tttacttatcatgttgcag--------------------------------------------------------------------------------------

upper sequence: GRMZM2G089630_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv07s0031g01860.t01 (Vitis vinifera), 5'ss of exon 2
GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagtctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacag
||| |  | || |||| |||||||||||||||||| ||||| || ||||| ||||| ||||||||||||||||||||||| ||  |||| || ||||| |||| | ||            || |  |||| | | |  |||  |    |    |||| | | || | | | || ||          | || |   || |      |    |||| ||  |  |                                                                  
GCAACTGTTGATGCTGCCGCATGGATGTTCAATGTTGTCACTTCGGTTGGAATCATTATGGTCAACAAAGCCTTAATGGCTACATATGGATTCAGTTTTGgtatgtcc-----------ctcatgactatcaacccacacgctt----taatcaatttatcagcctttatattact---------catacgatagttctaaatgcattgtgtcttatgcatttc-----------------------------------------------------------------

upper sequence: GRMZM2G089630_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv18s0072g00080.t01 (Vitis vinifera), 5'ss of exon 1
GCAGCACTAGACGCTGGCGCATGGATGTTCAATGTCGTCACATCCGTTGGTATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgtgcccaacctttcgttcctataaccgcgtacgagtacgatgcctaattcacccgcgtctttgtttctgtctaaaactaaactacgattttgctgagaaccagt-ctaattaaactatggctgtgcatagaaccagtctgatcgtcttatactaatttgttcgctgctatttgcttcgacag
||||||||||| || | |||||||||||||||||| ||||| || ||||| || ||| | ||||||||||| |||||||| ||  |||| || ||||| |||||               ||| || ||| |     |||    | || |   |  || |      ||||| |  |||| || |  |     | |  | ||  || ||      ||  ||||                                                                     
GCAGCACTAGATGCAGCCGCATGGATGTTCAATGTTGTCACTTCTGTTGGGATTATCCTTGTCAACAAAGCATTAATGGCTACATATGGATTCAGTTTTGgtaa---------------ttcttttctaaa-----gtaaatttgcgttttttctttgattaatttcttt-tgcctgtgtatattttttacatgcatgtgtggataattctcacttcttaa---------------------------------------------------------------------

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|211182574|gb|FL404769.1|FL404769
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTNGTT-CG                         CTACAACGTTGACTGGACTTCATTT
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTT
EST: gi|24462536|gb|BM660067.1|BM660067
EST:     TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|148965218|gb|EE016025.2|EE016025
EST:     TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211127243|gb|FL371391.1|FL371391
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTRGTTTCG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211219466|gb|FL394123.1|FL394123
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACTCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTCATTTTGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211212172|gb|FL397455.1|FL397455
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211059840|gb|FL382528.1|FL382528
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACTCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACYTCATTTTGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211163062|gb|FL403922.1|FL403922
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTRGTTTCG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211125396|gb|FL373706.1|FL373706
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACTCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTCATTTTGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211395001|gb|FL377443.1|FL377443
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACTCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTCATTTTGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211269202|gb|FL409758.1|FL409758
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACC
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACC
EST: gi|211421251|gb|FL404519.1|FL404519
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTAGTT-CG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211439743|gb|FL418515.1|FL418515
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACTGGACTTGCATTTCGCGATGACGACCTTGATGACATTA
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTT-CATTTCGCGATGACGACCTTGATGACATTA
EST: gi|211231674|gb|FL380035.1|FL380035
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTDGTTTCG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|148931222|gb|EC873991.2|EC873991
EST:     TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211030447|gb|FL427837.1|FL427837
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACTCATGGTTTTWGTTTCG                         CTACAACGTTGACTGGACTTCATTTTGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
EST: gi|211403472|gb|FL414959.1|FL414959
EST:     TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCG                         CTACAACGTTGACCGGACTTCATTTCGCGATGAC
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGAC
EST: gi|211421497|gb|FL416796.1|FL416796
EST:     TATCATCATGGTCAACAAGGCCTTAATGGCGACGCATGGTTTTAGTT-CG                         CTACAACGTTGACTGGACTTCATTTCGCGATGACGACCTTGATGACATTAG
genomic: TATCATCATGGTCAACAAAGCCTTAATGGCGACGCATGGTTTTAGTTTCGgtaagaccgt ... gcttcgacagCTACAACGTTGACCGGACTTCATTTCGCGATGACGACCTTGATGACATTAG