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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatactgcctgcgcgcaccgcgcctgccgccgccattggctgctgctgcgggttctatctaatgttcctgcaagattcggttcgacgacccggccgacccaccgaccgacaccctttttttttggcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGAGTTCGCCTTCGCTCCGCTTCATGCCTGCATTGCATTCGCATCTTCTGTG

Basic information

species Zea mays
transcript GRMZM5G822098_T05
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G822098_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g35644.3 (Oryza sativa), 3'ss of exon 2
gtatactgcctgcgcgcaccgcgcctgccgccgccattggctgctgctgcgggtt-ctatctaatgttcctgcaagattcggttcgacgacccggccgacccaccgaccgacaccctttttttttggcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGAGT--TCGCCTTCGCTCCGCTTCATGCCTGCATTGCATTCGCATCTTCTGTG
                                             |   ||  |  |  |||  |  ||| || |  |     ||     | | |   |      || ||     ||   | | |  | | ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||   ||   | ||| ||  |  |      | |  | |||  ||  | |  
---------------------------------------------gtctcgtctcgccttctccttctccggcgatctgtccctctctcgctccgttaatttcttgatcggatttctcgctgtctctc-cttgcagCTCGTGGTGATCGCCGGCATCGTGTGGAACCCGCCGACCTCCTGCGCGTGAGTCGCCGAGATTGCTGCGTCTTTTTGGCCTAGTTTAATCGAGTCCACCG--

upper sequence: GRMZM5G822098_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g35644.2 (Oryza sativa), 3'ss of exon 2
gtatactgcctgcgcgcaccgcgcctgccgccgccattggctgctgctgcgggtt-ctatctaatgttcctgcaagattcggttcgacgacccggccgacccaccgaccgacaccctttttttttggcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGAGTTCGCCTTCGCTCCGCTTCATGCCTGCATTGCATTCGCATCTTCTGTG
                                             |   ||  |  |  |||  |  ||| || |  |     ||     | | |   |      || ||     ||   | | |  | | ||||||||||||||||||||||||| ||||||||||||||||||||||||||                                                     
---------------------------------------------gtctcgtctcgccttctccttctccggcgatctgtccctctctcgctccgttaatttcttgatcggatttctcgctgtctctc-cttgcagCTCGTGGTGATCGCCGGCATCGTGTGGAACCCGCCGACCTCCTGCGC-----------------------------------------------------
















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|71301370|gb|DR786720.1|DR786720
EST:     GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAG                         CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
genomic: GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAGgtatactgcc ... gcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
EST: gi|71428081|gb|DR809131.1|DR809131
EST:     GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAG                         CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
genomic: GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAGgtatactgcc ... gcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
EST: gi|149005489|gb|EE040047.2|EE040047
EST:     GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAG                         CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
genomic: GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAGgtatactgcc ... gcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
EST: gi|28986606|gb|CB351219.1|CB351219
EST:     GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAG                         CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
genomic: GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAGgtatactgcc ... gcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
EST: gi|211170193|gb|FL324191.1|FL324191
EST:     GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAG                         CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTG
genomic: GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAGgtatactgcc ... gcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTG
EST: gi|18174795|gb|BM350183.1|BM350183
EST:     GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAG                         CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
genomic: GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAGgtatactgcc ... gcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
EST: gi|211495487|gb|FL010711.1|FL010711
EST:     GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAG                         CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
genomic: GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAGgtatactgcc ... gcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
EST: gi|18167896|gb|BM337736.1|BM337736
EST:     GCATGTTCCTGGCGCGATACCACGACAGCCCTGCCGGCGAATTCGACGAG                         CTCGTGGTGATCGCCGGCATTGTGTGGAAACCGCCGACCTCCTGCGCGTGA
genomic: GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAGgtatactgcc ... gcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
EST: gi|148966448|gb|EE017455.2|EE017455
EST:     GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAG                         CTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA
genomic: GCATGTTCCTGGCGCGCTACCACGACAGCCCTGCCGGCGAATTCGACGAGgtatactgcc ... gcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcgacgacccggccgacccaccgaccgacaccctttttttttggcgcctgcagCTCGTGGTGATCGCCGGCATTGTGTGGAACCCGCCGACCTCCTGCGCGTGAGTTCGCCTTCGCTCCGCTTCATGCCTGCATTGCATTCGCATCTTCTGTG
                                ccctttttttttggc  CT-rich tract
                                   ttttttttt  TA-rich tract