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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTCGCATACACTCTTATTTTTCTTCTCCGTGGCCGCCTCCCTTGGCAAGGATACCAAgttagtgtagttgatgttctgctcacctttttcttactcctactctttttttgtttttatttaaatactcacaaattttttatctgttattcttcaatcaatttag

Basic information

species Zea mays
transcript GRMZM2G045259_T01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G045259_T02 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 9
CCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTCGCATACACTCTTATTTTTCTTCTCCGTGGCCGCCTCCCTTGGCAAGGATACCAAgttagtgtag-ttgatgttctgctcacctttttcttactcctactctttttttgtttttatttaaatactcacaaattttttatctgttattcttcaatcaatttag
||||||||||||||||||  | ||||||||||| ||||||||||| |||||||| |||||||| ||||||||||||||||| ||||||||||||| ||| |||| | | | ||||| || ||      || ||  |||    |||  |||  | || | ||| |   |   ||  |                               
CCACTTGGGAAGAACTGGATGCAGGAGAGATGACCTTGAATCCCTTGCATACACACTTATTTTCCTTCTCCGTGGCCGCCTGCCTTGGCAAGGATTCCAGgttaattttgattgattttatgacttttttgttgctacatgcactaatttcgttttgtaattcatgaatgaacttag------------------------------

upper sequence: GRMZM2G045259_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA04G09080.1 (Glycine max), 5'ss of exon 9
CCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTCGCATACACTCTTATTTTTCTTCTCCGTGGCCGCCTCCCTTGGCAAGGATACCAAgttagtgtagttgatgttctgctcacctttttcttactcctactctttttttgtttttatttaaatactcacaaattttttatctgttattcttcaatcaatttag
|||  | || ||||| || || |||||||||||  | ||||| || || ||||||||| | |||||||| ||||| || || ||||||||||||||||| |||| | |        | || |  |   |  | ||| | ||| |  |   |       | |   || || |  | ||||||   |                     
CCATCTTGGTAGAACAGGTAGCAGGAGAGATGACTTGGAATCTCTTGCTTACACTCTTGTCTTTCTTCTTCGTGGTCGGCTACCTTGGCAAGGATACCAGgttattat--------tccttcaaatagtcattttagtactaatggtaaatgaa----aatatgattcttatgattttttttgttacag-----------------

upper sequence: GRMZM2G045259_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA06G09190.1 (Glycine max), 5'ss of exon 9
CCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTCGCATACACTCTTATTTTTCTTCTCCGTGGCCGCCTCCCTTGGCAAGGATACCAAgttagtgtagttgatgttctgctcacctttttcttactcctactctttttttgtttttatttaaatactcacaaattttttatctgttattcttcaatcaatttag
 ||  | ||  |||| || || |||||||||||  | ||||| || || ||||||||| | |||||||| ||||| || || |||||||||||||| || |||| | | |||     ||   |   | ||||  ||||  |       | |   |   | |   |  || |  ||  ||||   |                     
TCATCTTGGTCGAACAGGTAGCAGGAGAGATGACTTGGAATCTCTTGCTTACACTCTTGTCTTTCTTCTTCGTGGTCGGCTACCTTGGCAAGGATATCAGgttattattgtt-----tcaaatagtcattttagtactaat-------tgtaaatgaaaatatgactcttatgaaactttttgttacag-----------------

upper sequence: GRMZM2G045259_T02 (Zea mays), 5'ss of exon 9
lower sequence: Vv09s0002g03680.t01 (Vitis vinifera), 5'ss of exon 9
CCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTCGCATACACTCTTATTTTTCTTCTCCGTGGCCGCCTCCCTTGGCAAGGATACCAAgttag-tgtagttgatgttctgctcacctttttcttactcctactctttttttgtttttatttaaatactcacaaattttttatctgttattcttcaatcaatttag------------------------
 || ||||| |||||||| ||||||||||||||| | ||||| || || |||||||||||||| || |||||||| || || ||||||||||| || || ||| | |  | | || |||| | | |  ||| |    || ||  ||  |||    ||    | ||||     |    | ||  | |    || || | |  ||||                          
TCATTTGGGGAGAACTGGCAGTAGGAGAGATGATTTGGAATCTCTTGCTTACACTCTTATTTTCCTCCTCCGTGGTCGTCTACCTTGGCAAGGTTATCAGgttggctccattcgaagttccgataaaatttgttc--cttctcttcaatttgaagttccgataaaatttgttccttgtcttcctttcaagtttttgacttgatttttttgttcttaaaatcccatatatag

upper sequence: GRMZM2G045259_T02 (Zea mays), 5'ss of exon 9
lower sequence: Vv04s0008g00160.t01 (Vitis vinifera), 5'ss of exon 9
CCACTTGGGAAGAACTGGGAGTAGGAGAGATGATCTTGAATCCCTCGCATACACTCTTATTTTTCTTCTCCGTGGCCGCCTCCCTTGGCAAGGATACCAAgttagtgtagttgatgttctgctcacctttttcttactcctactctttttttgtttttatttaaatactcacaaattttttatctgttattcttcaatcaatttag
 ||| | ||||| ||||| || || ||||||||| | ||||| || || ||||| || ||||||||||||||||| || || ||||||||||| ||||| |||       |  |   |    |    ||||  ||  |   | ||| |   |  || |        ||  |||  || ||||                        
TCACCTTGGAAGGACTGGAAGCAGAAGAGATGATTTGGAATCTCTTGCTTACACCCTCATTTTTCTTCTCCGTGGACGGCTGCCTTGGCAAGGTTACCAGgttgacagtttccaaacttaaataggattttcttttatgtgattctgtacatcattctga------accaacagcttctttag-----------------------

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|32929439|gb|CF034251.1|CF034251
EST:     ACACTCTTATTTTTCTTCTCCGTGGCCGCCTCCCTTGGCAAGGATACCAA                         GGAGAGAACAAAGGTTTTCTTGTCTGCAAGAAAAAGATGGCGACATCTTCG
genomic: ACACTCTTATTTTTCTTCTCCGTGGCCGCCTCCCTTGGCAAGGATACCAAgttagtgtag ... atcaatttagGGAGAGAACAAAGGTTTTCTTGTCTGCAAGAAAAAGATGGCGACATCTCCG
EST: gi|32928927|gb|CF033739.1|CF033739
EST:     ACACTCTTATTTTTCTTCTCCGTGGCCGCCTCCCTTGGCAAGGATACCAA                         GGAGAGAACAAAGGTTTTCTTGTCTGCAAGAAAAAGATGGCGACATCTTCG
genomic: ACACTCTTATTTTTCTTCTCCGTGGCCGCCTCCCTTGGCAAGGATACCAAgttagtgtag ... atcaatttagGGAGAGAACAAAGGTTTTCTTGTCTGCAAGAAAAAGATGGCGACATCTCCG