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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggagcactcgctagcaccgtcatttcactgtcccgctcgcacgctaaggttccgcatctacctacctatctctgggctccgatctgacggcgttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCTGGAGCGCCCCAACGCCGGCCTAGTCCTCAGCACCACCGCCCGCTTCTAC

Basic information

species Zea mays
transcript GRMZM2G019260_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G019260_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g14830.1 (Oryza sativa), 3'ss of exon 1
gtgaggagcactcgctagcaccgtcatttcactgtcccgctcgcacgctaaggttccgcatctacctacctatctctgggctccgatctgacggcgttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCTGGAGCGCCCCAACGCCGGCCTAGTCCTCAGCACCACCGCCCGCTTCTAC
     |||  ||| |||    | |   |||    |   ||| | | |    ||    |      || | ||     ||   | |||||       | ||| |||||||||||||||||||||||||||||||| |||||||||| ||||||||||||||||| |||||||||||||| ||||||||||||| ||| |||||||||
---gtgagtgctctcta----cttggcttcg--attgggcttggaagtgtgggcggagagggctccgatctgatcgtg---ttcgatc-------gctgtggcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCGTCGCGGGAGGCTACCTCGTGCTGGAGCGGCCCAACGCCGGCCTCGTCCTCAGCACCAGCGCGCGCTTCTAC

upper sequence: GRMZM2G019260_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g48160.1 (Oryza sativa), 3'ss of exon 2
gtgaggagcactcgctagcaccgtcatttcactgtcccgctcgcacgctaaggttccgcatctacctacctatctctgggctccgatctgacggcgttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCG-TGCTGGAGCGCCCCAACGCCGGCCTAGTCCTCAGCACCACCGCCCGCTTCTAC----------------------------------------------
                                                                                                                               |||||| |||||||||| | ||| | ||||||||||||||||||||||||| ||||||| ||||||||| |||||||||                                              
-------------------------------------------------------------------------------------------------------------------------------gtgctcgtcgcgggaggtttcctagGTGCTGGAGCGCCCCAACGCCGGCCTCGTCCTCATCACCACCGCTCGCTTCTACGCCGTCGTCCTCCCGCCCCGCGACCAGCTCACCCACGACGAATCCT
















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|211063636|gb|FL185551.1|FL185551
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|78089475|gb|DV517849.1|DV517849
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|78093392|gb|DV521766.1|DV521766
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|101392374|gb|EB818116.1|EB818116
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|76285163|gb|DV024731.1|DV024731
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|211060651|gb|FL185544.1|FL185544
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGARGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|211063635|gb|FL185550.1|FL185550
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|211060654|gb|FL185547.1|FL185547
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|74234775|gb|DT642689.1|DT642689
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|211060650|gb|FL185543.1|FL185543
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|211063634|gb|FL185549.1|FL185549
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCG-CGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|71447563|gb|DR828613.1|DR828613
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|148978577|gb|EE026218.2|EE026218
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|211060652|gb|FL185545.1|FL185545
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCG-CGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|211060653|gb|FL185546.1|FL185546
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCCGC-GGGGAAAGTGCTCATCG
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGC-GCCGGGGAAGGTGCTCATCG
EST: gi|91867695|gb|EB399758.1|EB399758
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|76017987|gb|DT945157.1|DT945157
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|101390541|gb|EB817205.1|EB817205
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
EST: gi|71308540|gb|DR790509.1|DR790509
EST:     CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGT                         GGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT
genomic: CGACCTTCGGATCGAGTCTCGGCCGCCGAGGAGTCGAAGGCCATGGAAGTgtgaggagca ... gttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggttccgcatctacctacctatctctgggctccgatctgacggcgttgtcgcagGGTGGCGTCGGCGCCGGGGAAGGTGCTCATCGCGGGAGGATACCTCGTGCTGGAGCGCCCCAACGCCGGCCTAGTCCTCAGCACCACCGCCCGCTTCTAC
                                   atctgac  putative branch site (score: 3)