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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttgtcttttgtgtctgtcttcttgtttctgtcatttcataattcatttttgggatgttgacttctagaatttagagtttccttttttttaaatccttgcagctgcagttagaattcataaattcagtatccaaataaccacatgtcaaattttgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGATCTGGAAAAACATATTCGTGATGTGAATGCTCTGGTTACAGTGGTGCGGT

Basic information

species Zea mays
transcript GRMZM5G862931_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G862931_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g40790.1 (Oryza sativa), 3'ss of exon 4
gtaacttgtcttttgtgtctgtcttcttgtttctgtcatttcataattcatttttgggatgttgacttctagaatttagagtttccttttttttaaatccttgcagctgcagttagaattcataaattcagtatcca-aataaccaca-tgtcaaa--ttttgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGATCTGGAAAAACATATTCGTGATGTGAATGCTCTGGTTACAGTGGTGCGGT
||||||||    |      |||  || | ||| |  |||||  |  |||| |    | || | || ||||      |    |||  |  || | ||||   |    ||  |  |  |   || ||    |  | ||| |||||| | | |||||||  |||  || | ||||||||||||||||||||||||||||||||||| |||| ||||||||||||| ||||||  || |||| ||| || || ||||| ||||||||||||| ||
gtaacttggtcctcag---tgttatcctatttgtaccattttgtc-ttcactac-agaatttggaattctttgtgctga--ttttgtggttctgaaatttgtcttacttga--tgaatcccaaaatgcaaacaaccataataacaaaagtgtcaaaactttcctggaccagGATGTTGTGATATTGAACAAAATTGACCTAGTAGAAGGCAGTCTTGAGGATTTGGAAAGGCAGATTCATGAAGTCAACGCTCTTGTTACAGTGGTGCAGT

upper sequence: GRMZM5G862931_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g40404.1 (Oryza sativa), 3'ss of exon 5
gtaacttgtcttttgtgtctgtcttcttgtttctgtcatttcataattcatttttgggatgttgacttctagaatttagagtttccttttttttaaatccttgcagctgcagttagaattcataaattcagtatcca-aataaccaca--tgtcaaattttgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGATCTGGAAAAACATATTCGTGATGTGAATGCTCTGGTTACAGTGGTGCGGT
||||||||    |||    |||  || | ||| |  |||||  |  ||    |     || | || | ||     ||    ||    | |  | ||||   | | ||||    |  | | || ||    |  | ||| ||||||   |   |||||| |||   ||||||||||||||||||||||| ||| ||||| |||| ||||||| |||||||||| ||||||  || |||| ||| || || ||||| ||||||||||||| ||
gtaacttggtccttgg---tgttatcatatttgtaccattttgtctttg--ctacaaaatttggaatcctttgtgttga--ttctgctgtgctgaaatttgtcctgctga---tgaattccaaaatgcaaacaaccataataacagaaagcgtcaaactttccttaacagGATGTTGTGATATTGAATAAAGTTGACTTAGTAGAAGACAATCTTGAGGATTTGGAAAGGCAGATTCTTGAAGTCAACGCTCTTGTTACAGTGGTGCAGT
















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|40336013|gb|CK370083.1|CK370083
EST:     ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCG                         GATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
genomic: ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCGgtaacttgtc ... tgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
EST: gi|211125209|gb|FL458514.1|FL458514
EST:     ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCG                         GATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
genomic: ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCGgtaacttgtc ... tgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
EST: gi|76926513|gb|DV170904.1|DV170904
EST:     ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCG                         GATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
genomic: ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCGgtaacttgtc ... tgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
EST: gi|71435591|gb|DR816641.1|DR816641
EST:     ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCG                         GATGTTGTGATATTGAACAACATTGACCTAGTGGAAGACAGTCTTGAGGAT
genomic: ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCGgtaacttgtc ... tgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
EST: gi|89760831|gb|DY689083.1|DY689083
EST:     ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCG                         GATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
genomic: ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCGgtaacttgtc ... tgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
EST: gi|50335360|gb|CO530486.1|CO530486
EST:     ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCG                         GATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
genomic: ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCGgtaacttgtc ... tgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
EST: gi|71434868|gb|DR815918.1|DR815918
EST:     ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCG                         GATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
genomic: ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCGgtaacttgtc ... tgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
EST: gi|78108723|gb|DV527141.1|DV527141
EST:     ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCG                         GATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
genomic: ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCGgtaacttgtc ... tgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
EST: gi|71446369|gb|DR827419.1|DR827419
EST:     ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCG                         GATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT
genomic: ACAAAAACTCTTCCTCATTCCCTGAAGCATTTCATCAAATTGCATTTGCGgtaacttgtc ... tgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagaattcataaattcagtatccaaataaccacatgtcaaattttgtgtaacagGATGTTGTGATATTGAACAAAATTGACCTAGTGGAAGACAGTCTTGAGGATCTGGAAAAACATATTCGTGATGTGAATGCTCTGGTTACAGTGGTGCGGT
                        aaataac  putative branch site (score: 2)
     attcataaatt  TA-rich tract