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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactccctatccgcatcaccccccttcctctcttgctcaccactgcccctcccggcatcgtggcgaggctagctgccgcggtcggatttggtggctaactagggtttggtgcttgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGCGGCGGGTGGCCGACCACTACAGCGCGCGGTCCAACCAGACACTCGAGGA

Basic information

species Zea mays
transcript GRMZM2G042398_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G042398_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g08200.2 (Oryza sativa), 3'ss of exon 1
gta-ctc-cctatccgcatcaccccccttcctctcttgctcaccact-gcccctcccggcatcg-tggcgaggctagctgccgcggtcggatttggtggctaactagggtttggtgcttgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGCGGCGGGTGGCCGACCACTACAGCGCGCGGTCCAACCAGACACTCGAGGA
||| ||| |   ||| |  ||||  || ||   ||      ||| ||    ||  ||   | || ||  | || | |  ||      ||| ||||| |  |   |     |||| |     || |  ||||||||||||||   |  ||| || |||||||| |||||||||||||||||||||||||| ||||||||||||||| |||| |||||||| ||||||||
gtaactcactcctcctctccaccaaccctctcgtcaaatcaacccctcaatccagccaaaaccgatgctgcgggtggtagctaactacggttttggcgtttttttt---cttgggg----ggtagGCGGCGGAGGGTATGG---GGGGCATGGGTACTCGGAGGAGCGGAGCAGCGCGCGGCGGGTGGCGGACCACTACAGCGCGAGGTCGAACCAGACGCTCGAGGA
















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|32919824|gb|CF024636.1|CF024636
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
EST: gi|211188180|gb|FL095407.1|FL095407
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGARGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCA
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCA
EST: gi|211188185|gb|FL095412.1|FL095412
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
EST: gi|211031436|gb|FL127268.1|FL127268
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
EST: gi|211188183|gb|FL095410.1|FL095410
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAASCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
EST: gi|211185780|gb|FL095396.1|FL095396
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTAC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTAC
EST: gi|211031437|gb|FL127269.1|FL127269
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCATGGTTACTCGGAAGAGCGGAGCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
EST: gi|211188173|gb|FL095400.1|FL095400
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
EST: gi|211185783|gb|FL095399.1|FL095399
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGARCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
EST: gi|211185782|gb|FL095398.1|FL095398
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
EST: gi|211188181|gb|FL095408.1|FL095408
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
EST: gi|211188179|gb|FL095406.1|FL095406
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
EST: gi|211188176|gb|FL095403.1|FL095403
EST:     CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
EST: gi|211185781|gb|FL095397.1|FL095397
EST:     CCGCGACGACCACTCCTTCGCCTCHGCGCCCAAGCGCCAGTATGGCGCAG                         GCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC
genomic: CCGCGACGACCACTCCTTCGCCTCCGCGCCCAAGCGCCAGTATGGCGCAGgtactcccta ... tgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctagctgccgcggtcggatttggtggctaactagggtttggtgcttgagtggcagGCGGAGGGTATGGCCCGCAGCAGGGTTACTCGGAAGAGCGGAGCAGCGCGCGGCGGGTGGCCGACCACTACAGCGCGCGGTCCAACCAGACACTCGAGGA
                        ggctaac  putative branch site (score: 2)