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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaagaccagagcatttctgttgctgctgcctgctggcttctccacagggtactatctaagaaaaacggtgcctctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGGAAACGTGGGGACTTTGCTTTCCGTGACAAAGATTTCAAGGCAGCCATAG

Basic information

species Zea mays
transcript GRMZM2G127050_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g04050.1 (Oryza sativa), 3'ss of exon 7
gtaaaagaccagagcatttctgttgctgctgcctgctggcttctccacagggtactatctaagaaaaacggtgcctctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGGAAACGTGGGGACTTTGCTTTCCGTGACAAAGATTTCAAGGCAGCCATAG
|||||  |   ||||| ||   || |||     ||   | |  |   |   | | | | |      | |  |  | || | |||||||||||||||||||||||| |||||||||||||| ||| | || |||||||||||||| |||||||| || ||||| |||||||| ||| |||||||||
gtaaat-attggagcactttgatttctgtcatatggcagatcgttgtctaagaaatctatctcttcatcaatctccctgttgcagCTATCGTTCCAGGAATGGACTCAGCAGATGAGGGATATGTTAGATGCTAGGAAACGTGGAGACTTTGCGTTTCGTGATAAAGATTTTAAGACAGCCATAG

upper sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA02G48030.1 (Glycine max), 3'ss of exon 5
gtaaaagaccagagcatttctgttgctgctgcctgctggcttctccacagggtactatctaagaaaaacggtgcctctatcg---cagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGGAAACGTGGGGACTTTGCTTTCCGTGACAAAGATTTCAAGGCAGCCATAG
||||  ||   | |||||      | |      | ||   || |     || |  |||   | ||     |    |  || |   ||| | |||||||| || ||||| || |||||||| || |||||||| || ||||| ||||| |||| ||| ||||||||||| || || ||| ||||||| |
gtaactgatgggtgcattg----ggtttaaatttacta--tttttggttggatgatatgccataaggtttgaatttggattggttcagTTGTCGTTCCAAGAGTGGACTCAACAGATGAGAGATATGCTGGAGGCAAGGAAGCGTGGAGACTATGCATTCCGTGACAAGGACTTTAAGACAGCCATTG

upper sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv18s0001g00180.t01 (Vitis vinifera), 3'ss of exon 7
gtaaaagaccagagcatttctgttgctgctgcctgctggcttctccacagggtactatctaagaaaaacggtgcctctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGGAAACGTGGGGACTTTGCTTTCCGTGACAAAGATTTCAAGGCAGCCATAG
|||   ||      ||  | |     ||| |    |   |||     |   |    ||     |||     ||    ||  |||| |||| ||||| |||||||| || || ||||| || ||||| || || || || ||||||||||| || ||||||||||||||||| ||  |||||||||
gtacttgatttctacagatgtaggtttgcagatccccatctttaattctatgctaaattctttaaatgta-tgtggataatgcagTTATCTTTCCAAGAATGGACACAACAAATGAGAGATATGCTTGAGGCAAGAAAGCGTGGGGACTTAGCATTCCGTGACAAAGATTTTAAAACAGCCATAG

upper sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 7
--------gtaaaagaccagagcatttctgttgctgctgcctgctggcttctccacagggtactatctaagaaaaacggtgcctctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGGAAACGTGGGGACTTTGCTTTCCGTGACAAAGATTTCAAGGCAGCCATAG
        ||    ||  |  |  ||| | | ||  ||   | ||      ||||  ||  | |   | |       | ||  |   |  ||| | || ||||| |||||||| || |||||||| || ||||| ||||| ||||| |||||||||||||| ||||||||||| ||||| ||  | ||||| |
gtaattgagttgttgatgaaggtttttttttggcatctctatactcttacatccaatggtgagtggtttatcttggtgttgtattggtt-cagTTGTCCTTCCAAGAATGGACCCAACAGATGAGAGATATGCTAGAAGCAAGGAAGCGTGGGGACTTTGCATTCCGTGACAAGGATTTTAAAACTGCCATTG

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|76013660|gb|DT940830.1|DT940830
EST:     ATCAGATTCTAGTGAACACGCATTACAGGGATGATGAAGGGAGCAACGAG                         CTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGG
genomic: ATCAGATTCTAGTGAACACGCATTACAGGGATGATGAAGGGAGCAACGAGgtaaaagacc ... tctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGG
EST: gi|71310550|gb|DR791570.1|DR791570
EST:     ATCAGATTCTAGTGAACACGCATTACAGGGATGATGAAGGCAGCAACGAG                         CTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGG
genomic: ATCAGATTCTAGTGAACACGCATTACAGGGATGATGAAGGGAGCAACGAGgtaaaagacc ... tctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGG
EST: gi|32919403|gb|CF024215.1|CF024215
EST:     ATCAGATTCTAGTGAACACGCATTACAGGGATGATGAAGGGAGCAACGAG                         CTATCGTTCCAGGAATGGGACGCAGCAGATGAGGGACATGCTGGAAGCTAG
genomic: ATCAGATTCTAGTGAACACGCATTACAGGGATGATGAAGGGAGCAACGAGgtaaaagacc ... tctatcgcagCTATCGTTCCAGGAATGG-ACGCAGCAGATGAGGGACATGCTGGAAGCTAG
EST: gi|149059663|gb|EE157007.2|EE157007
EST:     ATCAGATTCTAGTGAACACGCATTACAGGGATGATGAAGGGAGCAACGAG                         CTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGG
genomic: ATCAGATTCTAGTGAACACGCATTACAGGGATGATGAAGGGAGCAACGAGgtaaaagacc ... tctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGG
EST: gi|32919355|gb|CF024167.1|CF024167
EST:     ATCAGATTCTAGTGAACACGCATTACAGGGATGATGAAGGGAGCAACGAG                         CTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGG
genomic: ATCAGATTCTAGTGAACACGCATTACAGGGATGATGAAGGGAGCAACGAGgtaaaagacc ... tctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGG
EST: gi|76015318|gb|DT942488.1|DT942488
EST:     GGGAGCAACGAG                         CTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGTTAGG
genomic: GGGAGCAACGAGgtaaaagacc ... tctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcctgctggcttctccacagggtactatctaagaaaaacggtgcctctatcgcagCTATCGTTCCAGGAATGGACGCAGCAGATGAGGGACATGCTGGAAGCTAGGAAACGTGGGGACTTTGCTTTCCGTGACAAAGATTTCAAGGCAGCCATAG
                                           cctctatc  CT-rich tract
                             taagaaaaa  TA-rich tract