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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtcttaaaaataggtgtgagttggcttaccgaaatctaatgaaggttatttcaattgaaccattttctgaacactgaatgttttttgtttgaatatgcagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAG

Basic information

species Zea mays
transcript GRMZM2G120329_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os07g06820.1 (Oryza sativa), 3'ss of exon 2
gtcttaaaaataggtgtgagttggcttaccgaaatctaatgaaggttatttcaattgaaccattttctgaacactgaatgtt-ttttgtttga--atatgcagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAG
  |||  | | | |||  |    | ||      || | ||  | | |||||   |  ||  ||||| |||  |||  | |   |||||||||   | |||||||||||||| |||||||||||||||||| | ||||||||||||||||| || || ||||||| ||||||||| |||||||||||||||||||||
--cttctagaaaagtgataacatgttttgacttatatgattgatgatatttttgtgaaatgatttt-tgacaactagacgggattttgtttgttcacatgcagGCTATTGATCCAAGAACACGCATGGTTCTGTTCAAGATGTTAAACCGGGGGGTTTTTAATACCATAAATGGGTGCATTTCTACAGGGAAAGAG

upper sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------------------------gtcttaaaaataggtgtgagttggctt---accgaaatctaatgaaggttatttcaattgaaccattttctgaacactga--atgttttttgtttgaatatg-----cagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAG
                                                                             |     ||| |     ||    |  ||   || || || ||  ||   ||||||   |       |||| | |||| | |  |||    |   |  ||  |      ||||| ||||| || ||||| |||||||||||||| |||||| | ||| | ||||||||| || | || ||||| |||||||| || || || || 
gtgagtggtggttatttcatgaaatccggtacttaaatttctttttatttatatatatgattttgttctccataaaagaaaagaaattgtacatgttcagaattcagacagatatgta-cgagccttatttttttgctgatgtttttttaacaattactatgcaagtaactctaaagtttcttccagGCAATTGATCCTAGAACTCGCATGGTTTTATTTAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA

upper sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA18G46440.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------------------------gtcttaaaaataggtgtgagt---------tggcttaccgaaatcta-atgaaggttatt--tcaattgaaccattttctg--aacactgaatgttttttgtttgaatatgc---agGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAG
                                                                     || |||| | | |  |  ||         | | | |   | |  |  ||||   |||||  |    |||  | ||||||   |  |||       |        | | | |   |||| ||||| || ||||| |||||||| |||||||||||| | ||| | ||||||||| || | || ||||| |||||||| || || || || 
gtgagtgatggtgatttcatgaaatccagtacttaaatatcttttttttttattatttgattttcttcttcataaagagaagaatttgtacctgttcatagttcaaacagacatgtatgagccttattcttttgctgatgccttttctaccattactatgcaagtaactccaaagtttcctccagGCAATTGATCCTAGAACGCGCATGGTCTTATTCAAGATGCTGAACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA

upper sequence: GRMZM2G120329_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 2
------------------------------------------------------------------------------------------gtcttaaa----aataggtgtgagttggcttaccgaaatctaatgaaggttatttcaattgaaccattttctgaacactgaatgttttttgtttgaatatgcagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAG
                                                                                           | |||||    ||   || |    | |  |    | || |  |   ||  || |  |  |||  |||      | ||       |  |||| | | | | ||||||||||| || ||||| ||||||||||||||||| ||| | || || ||||| ||  || | || || ||||||||||| || || ||||| 
gtgactagcaatttaaattgtttaaacttttgttctaatgaaaaattttctgttatttttatcgttataataagttcctgtgcatttcatattttaaagaagaaagagtttacaatagggtgtttatatttggt--tgggcatgtacaaggaattattcagatcaaacatgtaaataattgtgtaatttttcagGCTATTGATCCTAGAACTCGCATGGTTTTATTCAAAATGCTGAATCGAGGTGTGTTCCATGATATTAACGGCTGCATTTCAACTGGAAAAGAA

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|78115075|gb|DV533463.1|DV533463
EST:     TTGGGAAAATAAGGAACACTGAGAAGGCTGATCGTGCTACAGTGGAACAG                         GCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGT
genomic: TTGGGAAAATAAGGAACACTGAGAAGGCTGATCGTGCTACAGTGGAACAGgtatgtaaaa ... gaatatgcagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGT
EST: gi|149097280|gb|EE183103.2|EE183103
EST:     TTGGGAAAATAAGGAACACTGAGAAGGCTGATCGTGCTACAGTGGAACAG                         GCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGT
genomic: TTGGGAAAATAAGGAACACTGAGAAGGCTGATCGTGCTACAGTGGAACAGgtatgtaaaa ... gaatatgcagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttcaattgaaccattttctgaacactgaatgttttttgtttgaatatgcagGCTATTGACCCAAGAACACGCATGGTTTTATTCAAGATGTTAAACCGTGGTGTCTTTAATAACATAAATGGCTGCATTTCTACAGGGAAAGAG
                                   ttttttgtttgaatat  TA-rich tract