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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcatgctggtacttcatattctgcaacctttttctgctaatttaatcacacgttttcttacaaactattggcag

Basic information

species Zea mays
transcript GRMZM2G126190_T02
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g06390.5 (Oryza sativa), 5'ss of exon 2
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcatgctggtacttcatatt--ctgcaacctttttctgctaatttaatcacacg------ttttcttacaaactattggcag
 | ||  || |  ||||||||||||| |||||||| ||||||||||| |||||||||||||||||||||||||||||| || || ||  ||| |  |  | |||  ||     |    || | ||    | ||||||||  |        ||||||| | || |  ||||||
AACCAGTAGGAGGAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTGTGTGACAATGGAACTGGCATGGTCAAGgttcgtggtgctcattcgtagtatttctttgtagcagttatccccatgtttatgtgatttaatcgtatactttacttttcttgcgaattgctggcag

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g06390.6 (Oryza sativa), 5'ss of exon 2
--------CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcatgctggtacttcatatt--ctgcaacctttttctgctaatttaatcacacg------ttttcttacaaactattggcag
         | ||  || |  ||||||||||||| |||||||| ||||||||||| |||||||||||||||||||||||||||||| || || ||  ||| |  |  | |||  ||     |    || | ||    | ||||||||  |        ||||||| | || |  ||||||
GAATTCAGAACCAGTAGGAGGAAATGGCTGACGGCGAGGACATCCAGCCCCTTGTGTGTGACAATGGAACTGGCATGGTCAAGgttcgtggtgctcattcgtagtatttctttgtagcagttatccccatgtttatgtgatttaatcgtatactttacttttcttgcgaattgctggcag

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA04G39380.2 (Glycine max), 5'ss of exon 2
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttctt-gttcatgctggtacttcatattctgcaacctttttctgctaatttaatcacacgttttctt------acaaactattggcag
 |   |  |||| | |||||||| | |||||| ||||| |||||||| ||||||||||||||||| ||||| |||||| ||| ||    |||  | ||| ||  |   |||        |  |   | |    | |||| ||| ||| ||      |  | || |   |||
TAGT-TTGGTAAAAGATGGCTGATGCTGAGGATATTCAACCCCTTGTCTGTGACAATGGAACTGGAATGGTGAAGgttagtactttgcagtttcttctgttatgtgtaattgcatctattagtctcggtttcgttatcaaacgatttatttctataatgatctgtgtacag

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA15G05570.1 (Glycine max), 5'ss of exon 2
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcatgctggtacttcatattctgcaacctttttctgctaatttaatcacacgttttcttacaaactattggcag---------------------------------------
         ||| | |||||||| | |||||||||||| || ||||||  ||| ||||||||||| |||||||||||| | || | || | |    || |   |  | |  ||   | ||           || |      | || ||||  |   ||||  |                                        
-----GTTTTAAAAGATGGCTGATGCTGAGGACATTCAACCTCTTGTTGTTGATAATGGAACTGGAATGGTCAAGgttagaagatgttttgccaattgatgagt-gtttcttgtgccattgaagaagactgttcactctgtgcttgcttagtattcattgttaaatatgatattgatatatatatttttctcgatgtttgcag

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G32220.1 (Glycine max), 5'ss of exon 1
--------------------------CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcatgctggt-acttcatattctgcaacctttttctgc--taatttaatcacacgttttcttacaa-actattgg-cag
                          ||   |  |||| | ||||| || | |||||| ||||| |||||||||||||||||||||||||| |||||||||||| ||| ||   |    || |  |   ||||| | ||    | | |    ||  | | || || ||    | | | |    | ||| |  |||
TATTTCATGGCACCCTATGCTTTTTGCAG-GTTTGTAAAAGATGGCCGATGCTGAGGATATTCAACCCCTTGTTTGTGACAATGGAACTGGAATGGTCAAGgttagtacttagcggctttgttttttgtttcatgtgcttgtgcatctgctagccttgagttcataactgaatctttgattttaatatggaacag

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G15480.1 (Glycine max), 5'ss of exon 2
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttg----ttcatgctggtacttcatattctgcaacctttttctgc-taatttaatcacacgttttcttacaaactattggcag
     |  |||| | ||||| || |  ||||| ||||| ||||||||||| |||||||||||||| |||||||||||| ||| ||| ||    ||  |  || | | |     | |||||   ||   | | ||| | ||| |    ||||  ||   |  |       
----GTTTGTAAAAGATGGCAGATGCCGAGGATATTCAACCCCTTGTTTGCGACAATGGAACTGGAATGGTCAAGgttagtacttcgtggatttttgttttgttgcatgtgcatatgcaagtcttgagttcataagtgaataatttattttaatatggaacag------

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA04G39380.1 (Glycine max), 5'ss of exon 2
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttctt-gttcatgctggtacttcatattctgcaacctttttctgctaatttaatcacacgttttctt------acaaactattggcag
     |  |||| | |||||||| | |||||| ||||| |||||||| ||||||||||||||||| ||||| |||||| ||| ||    |||  | ||| ||  |   |||        |  |   | |    | |||| ||| ||| ||      |  | || |   |||
----TTTGGTAAAAGATGGCTGATGCTGAGGATATTCAACCCCTTGTCTGTGACAATGGAACTGGAATGGTGAAGgttagtactttgcagtttcttctgttatgtgtaattgcatctattagtctcggtttcgttatcaaacgatttatttctataatgatctgtgtacag

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA06G15520.2 (Glycine max), 5'ss of exon 2
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcatgctggtacttcatattctgcaacctttttctgctaatttaatcacacgttttcttacaaactattggcag-------
     |  |||| |||||||||| | |||||| ||||| |||||||||||||||||||||||||| ||||| |||||| ||| ||     |  |  || || |  |  | |  | |  |  |  || |    | ||  | |  ||| ||  |||  ||   | |       
----TTTGGTAAAAAATGGCTGATGCTGAGGATATTCAACCCCTTGTTTGTGACAATGGAACTGGAATGGTGAAGgttagtactttgcagtt-tcttgttagtgtaattgcatctatttagtcttggtttcattattgctcaatttatt-taaatgatcatctgtgtacag

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA05G32220.2 (Glycine max), 5'ss of exon 2
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcatgctggt-acttcatattctgcaacctttttctgc--taatttaatcacacgttttcttacaa-actattgg-cag
     |  |||| | ||||| || | |||||| ||||| |||||||||||||||||||||||||| |||||||||||| ||| ||   |    || |  |   ||||| | ||    | | |    ||  | | || || ||    | | | |    | ||| |  |||
----GTTTGTAAAAGATGGCCGATGCTGAGGATATTCAACCCCTTGTTTGTGACAATGGAACTGGAATGGTCAAGgttagtacttagcggctttgttttttgtttcatgtgcttgtgcatctgctagccttgagttcataactgaatctttgattttaatatggaacag

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G19420.1 (Glycine max), 5'ss of exon 2
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgta-gttcttgttcatgctggt-acttcatattctgcaacctttttctgctaatttaatcacacgttttcttacaaac--tattggcag------------------------
         ||| |||||||||| | |||||||||||| || ||||||  ||| ||||||||||| |||||||||||| | |  |  || |||    || | | | | | || ||| |      |  |  | ||   ||    | || |||| | |   ||||   |                         
-----GTTTTAAAAAATGGCTGATGCTGAGGACATTCAACCTCTTGTTGTTGATAATGGAACTGGAATGGTCAAGgttagaacatgttttttccaattgatgagtgcttcttgtgctattgaagta-gacagttcgctc-tgtgcttgcttaaatatgatattaatatatattttttctccaatgtttgcag

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: AT5G09810.1 (Arabidopsis thaliana), 5'ss of exon 2
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagttcttgttcatgctggtacttcatattctgcaacctttttctgctaatttaatcacacgttttcttacaaact------attggcag
         | | ||||||| || |||||||| |||||||| ||||| ||||||||||||||||| ||||| |||||  ||    || ||| ||   | ||||  ||  |    | | | ||| |  ||  |   | | ||   |  | |  |  |      |||  |||
---------TGAAAAATGGCCGATGGTGAGGATATTCAGCCACTTGTCTGTGACAATGGAACTGGAATGGTGAAGgtgagttagact-gtttatttagatactgtatggttctaaccttctttgttgtacatgtgtaagactactgatcatgatttttgtatattaacag

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv04s0044g00580.t01 (Vitis vinifera), 5'ss of exon 3
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt-----cttgttc---atgctggtacttcatattctgcaacctttttc---tgct-aatttaatcacacgttt--tcttacaaactattggcag
     | |  ||   ||||| ||   ||| || || |||||||| || ||||||||||||||||| ||||| ||||| ||| |||     |||| |    |||| | |   |  | || |       |  ||   |||| ||||| |  |  | ||   | |||     |||  ||||
----GTAATAAAAGGATGGCCGATACTGAAGATATCCAGCCCCTCGTCTGTGACAATGGAACTGGAATGGTGAAGgtctgttgtttctttcttgcttgatatgcagatttgttgtgttgtttgctgctcctcaaatgctcaatttgaataagctttccatgttatgctttatatgcag

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: Vv12s0178g00200.t01 (Vitis vinifera), 5'ss of exon 1
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtag----ttcttgttcatgctggt-acttcatattctgcaacctttttctgctaatttaat---cacacgttttcttacaaacta---ttggcag
         ||  | ||||| || |  ||||| || ||||| ||||| ||||||||||||||||| |||||||||||||||      ||||| || ||     | | |||||||  |     ||     || | |  |||    |    |   | ||||||| |    ||| |  
---AGGTTTTAGAAGATGGCCGATGCCGAGGATATCCAGCCTCTTGTGTGTGACAATGGAACTGGAATGGTCAAGgtttgtcagttattcttatttatttcaatgagttcatatgtttgtgtctgcacttgtttagataaagggctttagggattttacaaaatgaatttgactc

upper sequence: GRMZM2G126190_T02 (Zea mays), 5'ss of exon 2
lower sequence: PP1S337_21V6.2 (Physcomitrella patens), 5'ss of exon 3
CATCATCAGTAACAAATGGCTGACGGTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttg-tagttcttgttcatgctggtacttcatattctgcaacctttttctgctaatttaatcacacgttttcttacaaactattggcag-----------
  ||   | ||| |||||||||||||||||||  | |||||| | || || |||||||||||||| |||||||||||  | |   |||| |  |  |  |   || |  ||    ||| |  |||     ||| ||  |  | | |  |    | ||  ||               
-GTCGGTATTAAGAAATGGCTGACGGTGAGGAAGTACAGCCCTTGGTGTGCGACAATGGAACTGGAATGGTCAAGgtgaggtcactcttctaaaacccagagattaacttttccgaacttggttcattggattcaaggattc-tataatcttgagcttctgctgaaaaatattcta

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|211291997|gb|FL370574.1|FL370574
EST:     GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|28390372|gb|CB250183.1|CB250183
EST:     AATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: AATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|211413493|gb|FL407159.1|FL407159
EST:     GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTRNTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|29945132|gb|CB815485.1|CB815485
EST:     G-GAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|211463568|gb|FL374815.1|FL374815
EST:     GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTWTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|78111213|gb|DV529610.1|DV529610
EST:     GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|211199131|gb|FL384195.1|FL384195
EST:     GTGAGGACATTCAACCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|30087420|gb|CB885626.1|CB885626
EST:     TGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: TGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|211160799|gb|FL123581.1|FL123581
EST:     GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|149106004|gb|EE291648.2|EE291648
EST:     GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|22542569|gb|BU093007.1|BU093007
EST:     TGAGGACATATCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: TGAGGACAT-TCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|33091259|gb|CF051253.1|CF051253
EST:     GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGTGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|211512133|gb|FL430399.1|FL430399
EST:     GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTATGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|148951113|gb|EC896784.2|EC896784
EST:     GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
EST: gi|33285526|gb|CF075321.1|CF075321
EST:     GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAG                         GCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC
genomic: GTGAGGACATTCAGCCCCTTGTTTGTGACAATGGAACTGGCATGGTCAAGgtttgtagtt ... ctattggcagGCTGGTTTTGCTGGTGACGATGCGCCAAGGGCTGTTTTCCCAAGCATTGTC