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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggccattctcctgcgaggggaagctgcaatttttcctctctctctcgcttccccccgcttggtttgctggttcgtaacctgccggcggcaacttaactttgcggctgcagCTGGGCAAGATCGCGCCGCTGGCCGTGGGGCACATGCTGGGCACGGTGTTCACCAACATGAGCCTGGGCAAGGTCGCCGTCTCCTTCACGCACACCATCA

Basic information

species Zea mays
transcript GRMZM2G066413_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G066413_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g07730.1 (Oryza sativa), 3'ss of exon 2
gtgaggccattc----tcctgcgaggggaagctgc-aatttttcctctctctctcgcttccccccgcttggtttgctggttcgtaacctgccggcggcaacttaactttgcggctgcagCTGGGCAAGATCGCGCCGCTGGCCGTGGGGCACATGCTGGGCACGGTGTTCACCAACATGAGCCTGGGCAAGGTCGCCGTCTCCTTCACGCACACCATCA
|||||   |||     || ||| |     |   |  ||     | | |       | ||  || || ||| |    |  |  | ||  | | |              ||   || |||||||| ||||||||||||||| ||||  ||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||| ||||||||||
gtgagatgatttggtttcttgcaaccaacaatggagaaagaaacatgtgcaatgtgattgtccgcgattgctgaattcttctgaaattttcgg--------------ttctcgccgcagCTGGCCAAGATCGCGCCGCTCGCCGCCGGGCACATGCTGGGCACGGTGTTCACCAACATGAGCCTGAGCAAGGTCGCCGTCTCCTTCACCCACACCATCA

upper sequence: GRMZM2G066413_T02 (Zea mays), 3'ss of exon 2
lower sequence: EDP02676 (Chlamydomonas reinhardtii), 3'ss of exon 3
gtgaggccattctcctgcgaggggaagctgcaatttttcctctctctctcgcttccccccgcttggtttgctggttcgtaacctgccggcggca-acttaactttgcggctgcagCTGGGCAAGATCGCGCCGCTGGCCGTGGGGCACATGCTGGGCACGGTGTTCACCAACATGAGCCTGGGCAAGGTCGCCGTCTCCTTCACGCACACCATCA
          |||  || || | || ||       | |     ||   | |     || ||  ||  ||          ||| |  || | ||   ||   | |  | ||  ||| |    ||  |   |||||||||||||| |||||  ||||| |   || ||||||||||||||||||||   || || || |||||||| ||||||||||
---------atctgatgtgacgcgatgcgatgtgatgttgaaactactttgacagacctcgaatgccttat------acaacattgcgtctgcctgctcgccctccccgcctcagATCAAGAACGTGCTGCCGCTGGCCGTGGTGCACACCCTGGGTAACCTGCTCACCAACATGAGCCTGGGCGCCGTGGCGGTGTCCTTCACACACACCATCA
















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|211269384|gb|FL189988.1|FL189988
EST:     TCATGTGGGCCACCAGGCTCCACCCGGCGCCCAGGCTCTCCGCTGCGCAG                         CTGGGCAAGATCGCGCCGCTGGCCGTGGGGCACATGCTGGGCACGGTGTTC
genomic: TCATGTGGGCCACCAGGCTCCACCCGGCGCCCAGGCTCTCCGCTGCGCAGgtgaggccat ... gcggctgcagCTGGGCAAGATCGCGCCGCTGGCCGTGGGGCACATGCTGGGCACGGTGTTC
EST: gi|67024608|gb|CO453357.1|CO453357
EST:     TCATGTGGGCCACCAGGCTCCACCCGGCGCCCAGGCTCTCCGCTGCGCAG                         CTGGGCAAGATCGCGCCGCTGGCCGTGGGGCACATGCTGGGCACGGTGTTC
genomic: TCATGTGGGCCACCAGGCTCCACCCGGCGCCCAGGCTCTCCGCTGCGCAGgtgaggccat ... gcggctgcagCTGGGCAAGATCGCGCCGCTGGCCGTGGGGCACATGCTGGGCACGGTGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgcttggtttgctggttcgtaacctgccggcggcaacttaactttgcggctgcagCTGGGCAAGATCGCGCCGCTGGCCGTGGGGCACATGCTGGGCACGGTGTTCACCAACATGAGCCTGGGCAAGGTCGCCGTCTCCTTCACGCACACCATCA
                                     ttaacttt  TA-rich tract