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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccctcgcgctgaatcccggttgctcttttctctccctgcctcccgtgctgatggtgcacgctcctgattctgatctagatgttgtggggggaa...

Basic information

species Zea mays
transcript GRMZM2G053764_T03
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G01940.3 (Glycine max), 5'ss of exon 2
--------GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccctcgcgctgaatcccggt-tgctcttttctctccctgcctcccgtgctgatggtgcacgctcctgattctgatctagatgttgtggggggaa--
        ||||||||| || ||||||||||||| ||| |||||||| ||||| || ||||| || |||||| | || ||    || |||||      | ||      |   |   |  | ||| |  |   |   |   || | | |  ||   |    |  |  || ||||  || ||        |  
GTCATCAGGATGATGAGTGATTACAAGGTGGAGACGGTCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACAgtaa--atttttgcaaccctttgtgtcattttatttccaattattattttttgttcagttcttggttgaga-tagtgttgttctatttggtgcaacttttaat

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA07G07540.2 (Glycine max), 5'ss of exon 2
GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccctcgcgctga-atcccggttgctcttttctctccctgcctcccgt-gctgatggtgcacgctcctgattctgatctagatgttgtggggggaa
||||||||| |||||||||||||||||| | || ||||| ||||| || || |  ||  | ||| | || ||    || |||||   | |    | |   |||   ||| ||   ||     | |   |    | | |  ||||| |      ||  | || | | |  | |||| ||  | 
GATGATGAGTGACTACAAGGTGGAGATGATTAATGATGGAATGCAAGAGTTTTATGTGCATTTCCATGGACCCAATGAGAgtaagttctcctttgtttttatctatgttacttgctttagagctttttttgaattgtttttggtgaaaaaagttgggt-tgctattgcgggtgtgtggtaa-

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA16G03940.2 (Glycine max), 5'ss of exon 2
GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccctcgcgctga-atcccggttgc-tcttttctctccctgcctcccgtgctgatggtgcacgctcctgattctgatctagatgttgtggggggaa
||||||||| |||||||||||||||||| | || ||||| ||||| || || |  ||  | ||| | || ||    || |||||   | |    | |   |||   ||| | | ||||    |  |   |    || |  | ||| |      ||  | || | | |  | | || ||  | 
GATGATGAGTGACTACAAGGTGGAGATGATTAATGATGGAATGCAAGAGTTTTATGTGCACTTCCATGGACCCAATGAGAgtaaattctcctttgtttttatctttgttacatgttttgaagctttttgtgaattgttttttgtgaaaaaagttgggt-tgctattgtgggtatgtggtaa-

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G01940.4 (Glycine max), 5'ss of exon 1
--------------------GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccctcgcgctgaatcccggt-tgctcttttctctccctgcctcccgtgctgatggtgcacgctcctgattctgatctagatgttgtggggggaa--
                    ||||||||| || ||||||||||||| ||| |||||||| ||||| || ||||| || |||||| | || ||    || |||||      | ||      |   |   |  | ||| |  |   |   |   || | | |  ||   |    |  |  || ||||  || ||        |  
GACATGGATCAGGTCATCAGGATGATGAGTGATTACAAGGTGGAGACGGTCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACAgtaa--atttttgcaaccctttgtgtcattttatttccaattattattttttgttcagttcttggttgaga-tagtgttgttctatttggtgcaacttttaat

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA07G07540.3 (Glycine max), 5'ss of exon 1
--------------------GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccctcgcgctga-atcccggttgctcttttctctccctgcctcccgt-gctgatggtgcacgctcctgattctgatctagatgttgtggggggaa
                    ||||||||| |||||||||||||||||| | || ||||| ||||| || || |  ||  | ||| | || ||    || |||||   | |    | |   |||   ||| ||   ||     | |   |    | | |  ||||| |      ||  | || | | |  | |||| ||  | 
TTTTTTTTTTTAATTAATAGGATGATGAGTGACTACAAGGTGGAGATGATTAATGATGGAATGCAAGAGTTTTATGTGCATTTCCATGGACCCAATGAGAgtaagttctcctttgtttttatctatgttacttgctttagagctttttttgaattgtttttggtgaaaaaagttgggt-tgctattgcgggtgtgtggtaa-

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA08G01940.1 (Glycine max), 5'ss of exon 2
GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccctcgcgctgaatcccggt-tgctcttttctctccctgcctcccgtgctgatggtgcacgctcctgattctgatctagatgttgtggggggaa--
||||||||| || ||||||||||||| ||| |||||||| ||||| || ||||| || |||||| | || ||    || |||||      | ||      |   |   |  | ||| |  |   |   |   || | | |  ||   |    |  |  || ||||  || ||        |  
GATGATGAGTGATTACAAGGTGGAGACGGTCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACAgtaa--atttttgcaaccctttgtgtcattttatttccaattattattttttgttcagttcttggttgaga-tagtgttgttctatttggtgcaacttttaat

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 2
lower sequence: AT1G63800.1 (Arabidopsis thaliana), 5'ss of exon 2
GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaa-tagccc---tcgcgctg-----------aatcccgg----ttgctcttttctctccctgcctcccgtgctgatggtgcacgctcctgattctgatctagatgttgtggggggaa-------------------------------------------------------
||||||||| |||||||||||||||||| | || ||||| ||||| || ||||| ||||||||||  || ||    || ||||| || | |   |||  | |           ||||   |    ||| |  | | | | | ||       |||||||| ||  |      |  | |  | |  || |         |                                                        
GATGATGAGTGACTACAAGGTGGAGATGATCAATGATGGCATGCAAGAGTTCTTTGTCGAATTCAGTGGACCCAAAGACAgtaagtaactcaattcgtcccgtgaataatttaaatcatagagttttgattctgttttttcttgttcttgctgctgatgatgatcatcatagggttttgtgtcaatttcaacttatcagtatcaacttgttaatttttggtgattttatctctgtgtgtttgtactatggacag

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 2
lower sequence: Vv02s0025g00070.t01 (Vitis vinifera), 5'ss of exon 2
GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccctcgcgctgaatcccggttgctcttttctctccctgcctc-ccgtgctgatggtgcacgctcctgattctgatctagatgttgtggggggaa
||||||||| || || ||||||||||||||||| ||||| ||||| || ||||  ||||| ||| | || || |  || ||||| | |     | |  |  ||   ||  | |||  | | |||   |    |  | |   | | | |    |  || ||||  |    | | ||     |
GATGATGAGTGATTATAAGGTGGAGATGGTGAATGATGGCATGCAAGAGTTCTATGTCGATTTCCATGGACCCGGTGACAgtaa-atcttcaacacccataccttatttttttttattttgcctttttggttgatcaggatggggatgtgtatctttgtgattgaagattcgaggtattta

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 2
lower sequence: PP1S37_166V6.1 (Physcomitrella patens), 5'ss of exon 2
GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccctcgcgctgaatcccggttgctcttttctctccctg-cctcccgtgctgatggtgcacgctcc-tgattctgatctagatgttgtggggggaa-
||||||||| ||||||||||| ||||||||||| ||||| |||   |||||||  || || ||  | || |||   || ||||       ||        |     |  ||| ||||| |  | | ||    | |    |  | |  | |   | |  | | |   || | ||  |   ||  
GATGATGAGTGACTACAAGGTCGAGATGGTGAATGATGGAATGAGCGAATTCTATGTGGAGTTTCATGGACCGCGTGAGAgtacgttttttcatttc---ttaaattcactcctttctgttgcggaccgtatgcgtaactatttcgagttgtgtaaggccgtttgtgaagctgatgctcgatg

upper sequence: GRMZM2G053764_T03 (Zea mays), 5'ss of exon 2
lower sequence: EFJ34378 (Selaginella moellendorffii), 5'ss of exon 2
GATGATGAGCGACTACAAGGTGGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccctcgcgctgaatcccggttgctcttttctctccctgc--ctcccgtgctgatggtgcacgctcctgattctgatctagatgttgtggggggaa
||||||||| |||||||||||||||||||| |||||||||||| | || ||    || || ||| | || ||    || |||||   ||  | | |||    |   |    || || ||||||||    |  |||||   ||   | | |  ||  || |||   |||  ||       |  
GATGATGAGTGACTACAAGGTGGAGATGGTAAACGATGGGATGAACGAGTTTAATGTGGAGTTCCATGGACCTCGGGATAgtaa-gtcctccacactgccctcttctcttcctcttgtctccctgtggttttcgtgcctctgtgtctctcggcttgtt-tgaaagagagatttcttcttgtt

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|47961920|gb|CN844629.1|CN844629
EST:     GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA                         GTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
genomic: GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccc ... aatttggtagGTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
EST: gi|5713918|gb|AI943903.1|AI943903
EST:     GATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA                         GTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
genomic: GATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccc ... aatttggtagGTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
EST: gi|5649980|gb|AI920340.1|AI920340
EST:     TCGTCGAATTCAAGGGGCCGGCCGAAA                         GTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
genomic: TCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccc ... aatttggtagGTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
EST: gi|5895766|gb|AW037012.1|AW037012
EST:     GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA                         GTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
genomic: GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccc ... aatttggtagGTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
EST: gi|60355507|gb|DN222480.1|DN222480
EST:     GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA                         GTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
genomic: GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccc ... aatttggtagGTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
EST: gi|5917370|gb|AW054161.1|AW054161
EST:     GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA                         GTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
genomic: GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccc ... aatttggtagGTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
EST: gi|87156694|gb|DY401483.1|DY401483
EST:     GGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA                         GTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
genomic: GGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccc ... aatttggtagGTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
EST: gi|6022600|gb|AW067412.1|AW067412
EST:     GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA                         GTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
genomic: GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccc ... aatttggtagGTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
EST: gi|22715330|gb|BU197707.1|BU197707
EST:     GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA                         GTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
genomic: GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccc ... aatttggtagGTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
EST: gi|12968800|gb|BG265836.1|BG265836
EST:     GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA                         GTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
genomic: GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccc ... aatttggtagGTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
EST: gi|26559585|gb|CA831820.1|CA831820
EST:     GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAA                         GTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT
genomic: GAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAgtaatagccc ... aatttggtagGTATCTACCAAGGCGGTGTCTGGAAGGTTAGGGTAGAACTGCCTGATGCAT