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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtcacttctgccagtggttcatatgttctctaaatgtttagtcgattgtattgatgtattctaatctactcgtgctagggattgtgctaactttttctctctcattattcagGTTATGAGTGTTAAAGCTCTTGGTACATCACTAAAGCTTACTTTTGAGGGAACAAACCAATTAATATATCCAGAGACTTGGTTCTTTATGCTTGTTGTGG

Basic information

species Zea mays
transcript GRMZM2G120175_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G120175_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g43790.2 (Oryza sativa), 3'ss of exon 5
gtaatgtcacttctgccagtggttcatatgttctctaaatgtttagtcgattgtattgatgtattctaatctactcgtgctagggattgtgctaactttttctctctcattattcagGTTATGAGTGTTAAAGCTCTTGGTACATCACTAAAGCTTACTTTTGAGGGAACAAACCAATTAATATATCCAGAGACTTGGTTCTTTATGCTTGTTGTGG
|||||||||||| | |||    ||    | |||| |   |||||  |     || ||||   | | || ||| |     |||  | |  ||||||  |||   |      ||||||||| ||||||||||||||||||||||||||  ||||| | || |||||||| ||||| || ||  ||||||||||||||||||||||| ||||| | ||||
gtaatgtcacttataccatcaattgcagtattct-tggttgttttat-----gttttgaatgactttactctcc-----ctaatggtc-tgctaatgtttgtccata---tattcagGTAATGAGTGTTAAAGCTCTTGGTACATCCTTAAAGTTGACGTTTGAGGGGACAAATCAGTTGGTATATCCAGAGACTTGGTTCTTTGTGCTTATAGTGG
















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|5895870|gb|AW037116.1|AW037116
EST:     CCAATGTGTTGATCTACACTGCCATTTGCTCTTTGATGGGCTCTCTTTCG                         GTTATGAGTGTTAAAGCTCTTGGTACATCACTAAAGCTTACTTTTGAGGGA
genomic: CCAATGTGTTGATCTACACTGCCATTTGCTCTTTGATGGGCTCTCTTTCGgtaatgtcac ... cattattcagGTTATGAGTGTTAAAGCTCTTGGTACATCACTAAAGCTTACTTTTGAGGGA
EST: gi|74234883|gb|DT642797.1|DT642797
EST:     CCAATGTGTTGATCTACACTGCCATTTGCTCTTTGATGGGCTCTCTTTCG                         GTTATGAGTGTTAAAGCTCTTG
genomic: CCAATGTGTTGATCTACACTGCCATTTGCTCTTTGATGGGCTCTCTTTCGgtaatgtcac ... cattattcagGTTATGAGTGTTAAAGCTCTTG
EST: gi|76281094|gb|DV020662.1|DV020662
EST:     CCAATGTGTTGATCTACACTGCCATTTGCTCTTTGATGGGCTCTCTTTCG                         GTTATGAGTGTTAAAGCTCTTGGTACATCACTAAAGCTTACTTTTGAGGGA
genomic: CCAATGTGTTGATCTACACTGCCATTTGCTCTTTGATGGGCTCTCTTTCGgtaatgtcac ... cattattcagGTTATGAGTGTTAAAGCTCTTGGTACATCACTAAAGCTTACTTTTGAGGGA
EST: gi|76287457|gb|DV027025.1|DV027025
EST:     ATTTGCTTTTTGATGGGCTCTCTTTCG                         GTTATGAGTGTAAAAGCTCTTGGTACATCACTAAAGCTTACTTTTGAGGGA
genomic: ATTTGCTCTTTGATGGGCTCTCTTTCGgtaatgtcac ... cattattcagGTTATGAGTGTTAAAGCTCTTGGTACATCACTAAAGCTTACTTTTGAGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctaatctactcgtgctagggattgtgctaactttttctctctcattattcagGTTATGAGTGTTAAAGCTCTTGGTACATCACTAAAGCTTACTTTTGAGGGAACAAACCAATTAATATATCCAGAGACTTGGTTCTTTATGCTTGTTGTGG
                           tgctaac  putative branch site (score: 1)
                                 ctttttctctctcatt  CT-rich tract
                              taacttttt  TA-rich tract