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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttccaataagtatggtgtttgctaacagtttgctggctttatttttttgggtactgacatccatgtcatatctagGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTTTCTCTTGTCCGTACCCGTTTTGTGGGTCATCTTCGTGATGTCAGAAGAC

Basic information

species Zea mays
transcript GRMZM2G410479_T01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G410479_T01 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os03g26960.1 (Oryza sativa), 3'ss of exon 13
---------------gtaatttccaataagtatggtgtttgctaacagtttgctggctttatttttttgggtactgacatccatgtcatatctagGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTTTCTCTTGTCCGTACCCGTTTTGTGGGTCATCTTCGTGATGTCAGAAGAC
               |  || |    ||||  | || |||  || || | |    ||||| |  |     ||||     || |||    || ||||||||||| ||||||||||||||||| || |||||||||||||||||| | ||||||||||| |||||||||||||| ||||||||||||||||||||||
gtatttattgcttgagctatgttttttaagc-tagtattt--tatcattctttctgctttgtgctgacatgtacccttttctatgcatcatgtagGTTACCACAGTGGACAAGTTCCAGGGTCAACAAAATGATTTCATTTTATTATCTCTTGTCCGCACCCGTTTTGTGGGGCATCTTCGTGATGTCAGAAGAC

upper sequence: GRMZM2G410479_T01 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA0048S00340.1 (Glycine max), 3'ss of exon 12
-----------------gtaatttccaataagtatggtgtttgctaacagtttg---ctggctttatttttttgggtactgacatccatg-tcatatctagGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTTTCTCTTGTCCGTACCCGTTTTGTGGGTCATCTTCGTGATGTCAGAAGAC
                 |||   |  |   | |      |||  |||   | ||   ||   || | || | |  ||  |    |  ||| |       ||||||| || ||||| ||||| || || |||||||||||||| || || || ||| |||| ||||| || ||||| ||||| || |||||||| |||||| 
gtatgatgttttggacagtagagtaaagagacttcttcattttttaaagttgtgattctcaattaagttatctttgt-ttactgtaaatgattgctctcagGTTACTACAGTGGATAAGTTTCAAGGTCAGCAAAATGATTTTATATTGCTATCTATTGTGCGTACTCGATTTGTTGGTCACCTACGTGATGTAAGAAGAT

upper sequence: GRMZM2G410479_T01 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA20G00260.1 (Glycine max), 3'ss of exon 12
--------------------gtaatttccaataagtatggtgtttgctaacagtttgctggctttatttttttgggtactgacatccatg-tcatatctagGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTTTCTCTTGTCCGTACCCGTTTTGTGGGTCATCTTCGTGATGTCAGAAGAC
                    |||| |  | || | |||  | ||||         | ||   || | || | |  ||  |   ||  ||| |       ||||||| || ||||| ||||| || || |||||||||||||| || || || |||||||| ||||| || ||||| ||||| || |||||||| |||||| 
atgatgttttggacagtagagtaaatagccatcaatattttttttgaagttgtgattctcaattaagttatctctgttttc-tataaatgattgctctcagGTTACTACAGTGGATAAGTTTCAAGGTCAGCAAAATGATTTTATATTGCTATCTCTTGTGCGTACTCGATTTGTTGGTCACCTACGTGATGTAAGAAGAT

upper sequence: GRMZM2G410479_T01 (Zea mays), 3'ss of exon 14
lower sequence: AT2G38770.1 (Arabidopsis thaliana), 3'ss of exon 12
---------------gtaatttccaataagtatggtgtttgctaacagtttgctggctttatttttttgggtactgac-atccatgtcatatct----agGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTTTCTCTTGTCCGTACCCGTTTTGTGGGTCATCTTCGTGATGTCAGAAGAC
                   |||    || | |           |  |  ||          |  ||||| ||  ||||  | |   |  ||| |    |||| || || |||||||||||||| || || || ||||||||||| || || |||||||| || || || || || |||||||| |||||||| |||||  
tttaggtttcgattttggttttttggtatgcaatacccccctaagaaagttatcacagagttagttttgtgttttgactgttctaattttatttcctcagGTGACTACAGTGGACAAGTTCCAAGGACAACAGAATGATTTCATATTGCTCTCTCTTGTACGGACACGCTTCGTAGGTCATCTACGTGATGTAAGAAGGT

upper sequence: GRMZM2G410479_T01 (Zea mays), 3'ss of exon 14
lower sequence: Vv13s0019g00880.t01 (Vitis vinifera), 3'ss of exon 12
---------gtaatttccaataagta---tggtgtttgctaacagtttgc----tggctttattttt---ttgggtact-gacatccatgtcatatctagGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTTTCTCTTGTCCGTACCCGTTTTGTGGGTCATCTTCGTGATGTCAGAAGAC
            ||||||  |   |    |  | ||   |||  |  ||     ||||| || |      |    || | ||      | |  | |  ||||||| || || || ||||| || || |||||||||||||| || ||||| |||||||| ||||| || || |||||||| ||||||||||| |||||||
tctgctggcaccatttcctgtgcattcctttattttcaataagggcatgtgtcatggctataatcacagatcacttatttgattgtttttttctttacagGTTACTACAGTAGATAAGTTTCAAGGTCAGCAAAATGATTTTATCTTACTGTCTCTTGTTCGTACTCGCTTCGTGGGTCACCTTCGTGATGTTAGAAGAC

upper sequence: GRMZM2G410479_T01 (Zea mays), 3'ss of exon 14
lower sequence: Vv08s0056g01110.t01 (Vitis vinifera), 3'ss of exon 12
-----------gtaatttccaataagta---tggtgtttgctaacagtttgc----tggctttatttttttgggt--actgacatccatgtcatatctagGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTTTCTCTTGTCCGTACCCGTTTTGTGGGTCATCTTCGTGATGTCAGAAGAC
              ||||||  ||  |    |  | ||   |||  |  ||     ||||| || |    |   |    |||      | |  | |  ||||||| || || || ||||| || || |||||||||||||| || ||||| |||||||| ||||| || || |||||||| ||||||||||| |||||||
aatctgcaggaaccatttcctgtacattcctttattttcaataaaggcatgtgtcatggctataatcacatcacttagttgattgattttttctttacagGTTACTACAGTTGATAAGTTTCAAGGTCAGCAAAATGATTTTATCTTACTGTCTCTTGTTCGTACTCGCTTCGTGGGTCACCTTCGTGATGTTAGAAGAC

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|47961825|gb|CN844534.1|CN844534
EST:     ATGTTATCAACAAAAGATGCAAACCATGGAATATTGAGCCCCCTAACAAG                         GTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTT
genomic: ATGTTATCAACAAAAGATGCAAACCATGGAATATTGAGCCCCCTAACAAGgtaatttcca ... tcatatctagGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTT
EST: gi|6859933|gb|AW355927.1|AW355927
EST:     ATG-TATC-ACAAAAGATGCAAA-CATGGAATATTGAGCCCCCT-ACAAG                         GTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTT
genomic: ATGTTATCAACAAAAGATGCAAACCATGGAATATTGAGCCCCCTAACAAGgtaatttcca ... tcatatctagGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTT
EST: gi|78179130|gb|DV549503.1|DV549503
EST:     ATGTTATCAACAAAAGATGCAAACCATGGAATATTGAGCCCCCTAACAAG                         GTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTT
genomic: ATGTTATCAACAAAAGATGCAAACCATGGAATATTGAGCCCCCTAACAAGgtaatttcca ... tcatatctagGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTT
EST: gi|6952423|gb|AW424491.1|AW424491
EST:     ATGTTATCAACAAAAGATGCAAACCATGGAATATTGAGCCCCCTAACAAG                         GTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTT
genomic: ATGTTATCAACAAAAGATGCAAACCATGGAATATTGAGCCCCCTAACAAGgtaatttcca ... tcatatctagGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctaacagtttgctggctttatttttttgggtactgacatccatgtcatatctagGTTACCACTGTGGACAAGTTCCAGGGCCAGCAAAATGATTTCATTTTACTTTCTCTTGTCCGTACCCGTTTTGTGGGTCATCTTCGTGATGTCAGAAGAC
                               tactgac  putative branch site (score: 1)
                 tttattttttt  TA-rich tract