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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCCTGCGAGCATACAGgtaataataaaaacatttattctagtaggtgagcgttgtggcaaatgtttgtaatgtatatatgttaattgtag

Basic information

species Zea mays
transcript GRMZM2G001457_T02
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G001457_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os12g01140.1 (Oryza sativa), 5'ss of exon 21
TGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCCTGCGAGCATACAGgtaa-taataaaaacatt-tattctagtaggtgagcgttgtggcaaatgtttgtaatgtatatatgttaattgtag
||| ||||| |||||||||||||| || ||||| ||||| || ||| ||||||||||||||||  ||||||||||||||||||||||||| || |||  ||||| |||   || | |  | || |  || ||  | |  ||   |   ||||| | | |  |              
TGAAATGTTGTATGGTTATACACCTTTTAGAGGAAAAACGAGGCAACGGACATTTGCTAATATCTTGCACAAGGATATCAGATTTCCTGCTAGTATATCGgtaagtaaatcaagcgtcatttttttttaagttggagaagttaaatcagtttg-agttttcag-------------

upper sequence: GRMZM2G001457_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g01140.3 (Oryza sativa), 5'ss of exon 21
TGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCCTGCGAGCATACAGgtaa-taataaaaacatttattctagtaggtgagcgttgtggcaaatgtttgtaatgt-atatatgttaattgtag-----------------------------
||| ||||| |||||||||||||| || ||||| ||||| || ||| ||||||||||||||||  ||||||||||||||||||||||||| || |||  ||||| |||   || | |   || |  || ||  | |  ||   |   |||||   | | |  |  |   |  |  |                             
TGAAATGTTGTATGGTTATACACCTTTTAGAGGAAAAACGAGGCAACGGACATTTGCTAATATCTTGCACAAGGATATCAGATTTCCTGCTAGTATATCGgtaagtaaatcaagcgtcattttttttaagttggagaagttaaatcggtttgagttttcaggtcagcctagcggcgaggcagctaatgtataggttgctacatag

upper sequence: GRMZM2G001457_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os11g01140.1 (Oryza sativa), 5'ss of exon 21
TGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCCTGCGAGCATACAGgtaa-taataaaaacatttattctagtaggtgagcgttgtggcaaatgtttgtaatgtatatatgttaattgtag
||| ||||| |||||||||||||| || ||||| ||||| || ||| ||||||||||||||||  ||||||||||||||||||||||||| || |||  ||||| |||   || | |   || |  || ||  | |  ||   |   ||||| | | |  |              
TGAAATGTTGTATGGTTATACACCTTTTAGAGGAAAAACGAGGCAACGGACATTTGCTAATATCTTGCACAAGGATATCAGATTTCCTGCTAGTATATCGgtaagtaaatcaagcgtcattttttttaagttggagaagttaaatcggtttg-agttttcag-------------

upper sequence: GRMZM2G001457_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA13G40550.1 (Glycine max), 5'ss of exon 20
TGAGATGTTATATGGTTATACACCGTTCAGAGGGAAAACAAGACAAAGGACATTTGCTAATATTCTGCACAAGGATATCAGATTTCCTGCGAGCATACAGgtaataataaaaacatttattctagtaggtgagcgttg-tggcaaatgtttgtaatgta---tatatgttaattgtag----------------------
||| ||| | ||||| ||||| || ||| | ||||||||||||||||  |||||||| |||||||| ||||||||  | | ||||||    || | || ||| |   | |       ||   ||  |       |||| |  ||  |   | |  |  |   ||  | | |||| |                        
TGAAATGCTTTATGGGTATACGCCATTCCGGGGGAAAACAAGACAAAAAACATTTGCAAATATTCTTCACAAGGACCTTAAATTTCCCAAAAGTAAACCGgtgagtgttatccttcctaacttatcatacatttgttgcttacaggttgctttgctacagcttaattttcaattttgatctgagttatgaaattcacctt

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|6672132|gb|AW282307.1|AW282307
EST:     CATTTGCTAATATTCTGCNCAAGGATATCAGATTTCCTGCGAGCATACAG                         GTGAGCCTGGCGGCAAGGCAGCTGATATACCGGTTGCTACACCGAGACCCT
genomic: CATTTGCTAATATTCTGCACAAGGATATCAGATTTCCTGCGAGCATACAGgtaataataa ... ttaattgtagGTGAGCCTGGCGGCAAGGCAGCTGATATACCGGTTGTTACACCGAGACCCT
EST: gi|28985222|gb|BQ538375.2|BQ538375
EST:     CATTTGCTAATATTCTGCACAAGGATATCAGATTTCCTGCGAGCATACAG                         GTGAGCCTGGCGGCAAGGCAGCTGATATACCGGTTGTTACACCGAGACCCT
genomic: CATTTGCTAATATTCTGCACAAGGATATCAGATTTCCTGCGAGCATACAGgtaataataa ... ttaattgtagGTGAGCCTGGCGGCAAGGCAGCTGATATACCGGTTGTTACACCGAGACCCT
EST: gi|13490746|gb|BG517510.1|BG517510
EST:     CATTTGCTAATATTCTGCACAAGGATATCAGATTTCCTGCGAGCATACAG                         GTGAGCCTGGCGGCAAGGCAGCTGATATACCGGTTGTTACACCGAGACCCT
genomic: CATTTGCTAATATTCTGCACAAGGATATCAGATTTCCTGCGAGCATACAGgtaataataa ... ttaattgtagGTGAGCCTGGCGGCAAGGCAGCTGATATACCGGTTGTTACACCGAGACCCT