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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagcagcattggctagaccgcatccccgccaatccatataagctttattttgtttttttttttcttcagcgctgatgctaccatttgagtttgacgacggtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGACTACCCCCGCGACCCGAGCGAGTACGTGCGGCGCGTCGGGCGGACTGCC

Basic information

species Zea mays
transcript GRMZM2G113267_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G113267_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g01830.1 (Oryza sativa), 3'ss of exon 7
gtcagcagcattggctagaccgcatccccgccaatccatataagctttattttgtttttttttttcttcagcgctgatgctaccatttgagtttgacgacggtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGACTACCCCCGCGACCCGAGCGAGTACGTGCGGCGCGTCGGGCGGACTGCC
                  |  |||||     ||    |  | |     ||    |   || | || |  |||| ||||    |   |||  ||||  |   | |  |||||||||||||| ||||||||||||||||||||||||||||||||||| ||||||||||| ||||||||||| ||||||||||||||||||||  |||| |||
----------------gtaaggcatcg--atcacctgaagtgaagcgcatgaaatcgattctgttttcaagcgatgat----ctgattggatttggtgggtggca-tgcagGGCGTCGCGAGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTGTTCGACTACCCGCGCGACCCGAGTGAGTACGTGCGGCGCGTCGGCAGGACGGCC

upper sequence: GRMZM2G113267_T03 (Zea mays), 3'ss of exon 1
lower sequence: EFJ33555 (Selaginella moellendorffii), 3'ss of exon 6
gtcagcagcattggctagaccgcatccccgccaatccatataagctttattttgtttttttttttcttcagcgctgatgctaccatttgagtttgacgacggtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGACTACCCCCGCGACCCGAGCGAGTACGTGCGGCGCGTCGGGCGGACTGCC
                                        |||   | |   ||  |||  || |  |||                  |  ||| |      ||| | ||| || ||  | ||| | ||||  |     |||   | |||  | ||||||||||||||||| || |||||||||||| | |||||||| ||| | || |||
---------------------------------------gtaattctaaaactgggtttccttcttctcaa-----------------gtattttatacttctcg-tacagAGCCTCCAGAGGCCTGGACTCGGTTGGAGTGGGACGCGTCATCCTCTTCGACTACCCCCGAGATCCGAGCGAGTACATCCGGCGCGTGGGGAGAACCGCC

upper sequence: GRMZM2G113267_T03 (Zea mays), 3'ss of exon 1
lower sequence: EFJ36912 (Selaginella moellendorffii), 3'ss of exon 11
gtcagcagcattggctagaccgcatccccgccaatccatataagctttattttgtttttttttttcttcagcgctgatgctaccatttgagtttgacgacggtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGACTACCCCCGCGACCCGAGCGAGTACGTGCGGCGCGTCGGGCGGACTGCC
                                                     ||  |   ||| ||||  | |   |  |    ||  | |||  |  |     || ||| || ||  | ||| | ||||  |     ||| | | |||  | ||||||||||||||||| || |||||||||||| | |||||||| ||| | || |||
-----------------------------------------------------gtaatcggtttccttcttctcaagtatt----ttatactttctcctc-----gtacagAGCCTCCAGAGGCCTGGACTCGGTTGGAGTGGAACGCGTCATCCTCTTCGACTACCCCCGAGATCCGAGCGAGTACATCCGGCGCGTGGGGAGAACCGCC

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|71317553|gb|DR795508.1|DR795508
EST:     TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAG                         GGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
genomic: TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAGgtcagcagca ... gtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
EST: gi|71441045|gb|DR822095.1|DR822095
EST:     TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAG                         GGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
genomic: TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAGgtcagcagca ... gtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
EST: gi|76920136|gb|DV168027.1|DV168027
EST:     TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAG                         GGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
genomic: TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAGgtcagcagca ... gtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
EST: gi|4753537|gb|AI657447.1|AI657447
EST:     TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAG                         GGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
genomic: TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAGgtcagcagca ... gtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
EST: gi|12969960|gb|BG266744.1|BG266744
EST:     TCCATGTTCCTTGTGTGCACAGATAG                         GGCGTCGCGGGGCATCGGCTTTGCGAACGTGAACCACGTGGTGCTCTTCGG
genomic: TCCATGTTCCTTGTGTGCACAGATAGgtcagcagca ... gtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
EST: gi|211220791|gb|FL456553.1|FL456553
EST:     TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAG                         GGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
genomic: TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAGgtcagcagca ... gtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
EST: gi|76914390|gb|DV165509.1|DV165509
EST:     TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAG                         GGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
genomic: TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAGgtcagcagca ... gtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
EST: gi|78026219|gb|DV494606.1|DV494606
EST:     TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAG                         GGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTTTTCGA
genomic: TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAGgtcagcagca ... gtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
EST: gi|110487925|gb|EE012484.1|EE012484
EST:     TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAG                         GGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
genomic: TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAGgtcagcagca ... gtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
EST: gi|78109607|gb|DV528023.1|DV528023
EST:     TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAG                         GGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
genomic: TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAGgtcagcagca ... gtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
EST: gi|76914388|gb|DV165508.1|DV165508
EST:     TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAG                         GGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA
genomic: TTCCTGAACAAGCAAACGGCTGACTCCATGTTCCTTGTGTGCACAGATAGgtcagcagca ... gtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttcttcagcgctgatgctaccatttgagtttgacgacggtcggtgcagGGCGTCGCGGGGCATCGACTTTGCGAACGTGAACCACGTGGTGCTCTTCGACTACCCCCGCGACCCGAGCGAGTACGTGCGGCGCGTCGGGCGGACTGCC
                                  gtttgac  putative branch site (score: 4)
     ttttctt  TA-rich tract