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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgctatctttccctgacagttggaagaatttgttcttggtattctcgtggttcgggagatgctgagacagttttgatgttctcgatgccgtcagTGGGTTCACGGAGACCAATTACACGCAGCTGACGGAGCTTTATCAGAAGTACAGGGACAAAGGTCTGTTCTTTGCCTGATGTGGTTCTTGATCTGTTGTT

Basic information

species Zea mays
transcript GRMZM2G329144_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G329144_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g24380.1 (Oryza sativa), 3'ss of exon 2
------------------gtacgctatcttt-ccctgacagttggaagaatttg--ttcttggtattctcgtggttcg-ggagatgctg-----------agaca-gttttgatgttctcgatgccgt-cagTGGGTTCACGGAGACCAATTACACGCAGCTGACGGAGCTTTATCAGAAGTACAGGGACAAAGGTCTGTTCTTTGCCTGATGTGGTTCTTGATCTGTTGTT
                    |  || || |  || ||   || || |||||||   || ||  | || |   |||  | | | ||| ||            |  | | |||||| |  ||  | |||  ||||||||||||||||||||| |||||||||||||||||||| ||||||||  ||||||||||||                                      
gtatatacttcgccatcacgatcctgtcctcaccatggtcgtgggtagaattttcttttttctttttttttgggtgtgtgaaaatggtgttcttgactgcgggtatgctttgatttgatctgtaccgggcagTGGGTTCACGGAGACCAACTACACGCAGCTGACGGAGCTCTATCAGAAACACAGGGACAAAG--------------------------------------

upper sequence: GRMZM2G329144_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT3G63080.1 (Arabidopsis thaliana), 3'ss of exon 2
gtacgctatctttccctgacagttggaagaatttgttcttggtattctcgtggttcgggagatgctgagacagtt-ttgatgttctcgatgccgt-cagTGGGTTCACGGAGACCAATTACACGCAGCTGACGGAGCTTTATCAGAAGTACAGGGACAAAGGTCTGTTCTTTGCCTGATGTGGTTCTTGATCTGTTGTT
          |    | ||   |  ||  |  || |   | ||    |  |  |||  |  || || |     || || |    |    ||  |  ||| || ||||||||| |||||||||| ||||||||||| ||||| | ||| || |  ||  |||                                      
---------gtccgtcagatcctccgatcatcttctctctagttaattattatttcttg--attctaaattttttgttaacaaacaatttggggaacagCGGATTCACGGAGTCCAATTACACCCAGCTGACGGAACTTTACCGGAAATATAAAGATCAAG--------------------------------------
















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|71441290|gb|DR822340.1|DR822340
EST:     GAAACCTACAAGGGGAAGGTCCTCCTTGTTGTTAACGTCGCCTCCAAATG                         TGGGTTCACGGAGACCAATTACACGCAGCTGACGGAGCTTTATCAGAAGTA
genomic: GAAACCTACAAGGGGAAGGTCCTCCTTGTTGTTAACGTCGCCTCCAAATGgtacgctatc ... atgccgtcagTGGGTTCACGGAGACCAATTACACGCAGCTGACGGAGCTTTATCAGAAGTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattctcgtggttcgggagatgctgagacagttttgatgttctcgatgccgtcagTGGGTTCACGGAGACCAATTACACGCAGCTGACGGAGCTTTATCAGAAGTACAGGGACAAAGGTCTGTTCTTTGCCTGATGTGGTTCTTGATCTGTTGTT
                               ttttgat  putative branch site (score: 4)
                               ttttgat  TA-rich tract