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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgttgattcaattgatcgcgctttctatcgctctgtgtgagtgccgtccacgtgacttttttttctgtgcgcgaatcgttctgatggtggtgcacgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG

Basic information

species Zea mays
transcript GRMZM2G134045_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g42420.1 (Oryza sativa), 3'ss of exon 1
gtactgttgattcaattgatcgcgctttctatcgctctgtgtgagtgccgtccacgtgacttttttttctgtgcgcg--aatcgttctgatggtggtgcacgcgt-----gcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
               |||   | |      |   || |||     ||   | |  |||| |||||||    | || |   |   |  | ||    | | | || |     ||||||||||||||| || ||||||||||||||||| ||||| |||||||||||||| ||||||||||||||||||||||| || || ||||| ||||||||||
-------------ggttgtgtgtgtgagagag-actgtgttcttctgtaattcgtgtgattttttttctcttacgagtcgactatatttatatgtgcgtatgcctaatttgcagATGTGCTTCGACTGCAACGCCAAGAACCCGACCTGGGCCTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCTGCCGTCCACCGTAGCCTCGGCG

upper sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G36700.2 (Glycine max), 3'ss of exon 1
------------------------------------------------------------------------------------------gtactgttgattcaattgatcgcgctttctatcgctctgtgtgagtgccgtccacgtgacttttttttctgtgcgcgaatcgttctgatggtggtgcacgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
                                                                                          ||  ||| | |||   |   || | | |   |     | ||  |   | || |  |||  |||  ||| ||     | || ||| |  || || |       | |||||||| |||||||| || || |||||||| || |||||||||||||| || ||  |||| ||||||||||| ||||| || || |||||||| |||||||
gtttggtttttgtaattttgaatttcgaatttcaatttgagtgcataatcgttggttccgtgatttcgttttatacagtttgaaattttcgt-ttgtggtttctgatttacgagatctggtttcagatctgcaatacctgtgcttgtgcgtttgatttttgaattggtatggtttttttgttgtttttt--tttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTTCTCTGCATCGATTGCTCCGCCGTACACCGCAGTCTCGGCG

upper sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
-----------------------------------------------------------------------------------gtactgttgattcaattgatcgcgctttctatcgctctgtgtgagtgccgtccacgtgacttttttttctgtgcgcgaatcgttctgatggtggtgcacgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
                                                                                   ||  ||| | |||   |   || | | |   |     | |||||   ||||    |||  |||  ||| ||     | || | | |  |  |  |       | |||||||| |||||||| || || |||||||| || |||||||||||||| || ||  |||||||||||||||| ||||| || || |||||||| |||||||
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgt-ttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttttgaatttgtatggcttt--tttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG

upper sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv02s0012g01330.t01 (Vitis vinifera), 3'ss of exon 1
-----------------------------------------gtactgttgattcaatt--gatcgc--gctttctatcgctctgtgtgagtgccgtccacgtgacttttttttctgtgcgcgaatcgttctgatggtggtgcacg-cgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
                                          | || ||| ||  |||  | |     | ||||| |   |  |     || | |  |  | |  ||     |  |  | ||  |  || |  || |  |    |   |  ||||||| || |||||||| || ||||||||||| |||||||||||||| || ||  |||||||||||||||||||||| || |||||  | || || || |
gtctgttctttactgaatttcttcgcggtatttttaaatgttttcttttgtttttattttggtttttggttttctgttcttgagatctggttcagatctggaggtttcgcgattggatctcggttttttattttgtttctttttggtttttagATGTGTTTTGATTGTAATGCGAAGAACCCGACTTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGACTGCTCCGCCGTGCATAGGAGTCTTGGGG

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|32926976|gb|CF031788.1|CF031788
EST:     CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACACCAAG                         ATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
EST: gi|89759291|gb|DY688160.1|DY688160
EST:     CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAG                         ATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
EST: gi|6637089|gb|AW261361.1|AW261361
EST:     CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAG                         ATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
EST: gi|32926997|gb|CF031809.1|CF031809
EST:     CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAG                         ATGTGCTTCGATTGTACCGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
EST: gi|31358549|gb|CD442906.1|CD442906
EST:     CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAG                         ATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
EST: gi|32925344|gb|CF030156.1|CF030156
EST:     CAGACAAGAGCGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAG                         ATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC
genomic: CAGACAAGAACGCCGTCTTCCGCAAGCTTCGCACCAAATCAGACAACAAGgtactgttga ... acgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacgtgacttttttttctgtgcgcgaatcgttctgatggtggtgcacgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG
                              ttctgat  putative branch site (score: 3)
      actttttttt  TA-rich tract