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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgtgaagcttctcttagttatttttgctgctcttaatcaccccatcgggttacttgcttgatgtatactactcgagcatatcattttttggggtaatatgtctcaacttcttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGCAG

Basic information

species Zea mays
transcript GRMZM2G019260_T01
intron # 4
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 4
lower sequence: LOC_Os03g14830.1 (Oryza sativa), 3'ss of exon 4
gttgtgaagcttctcttagttatttttgctgctcttaatcaccccatcgggttacttgct-tgatgtatactactcgagcatatcattttttggggtaatatgtctcaacttcttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGCAG
||| ||    ||   |  |   ||||    |||| |   ||   |||    ||   | || || | |||  |  |   |    | | || ||    |  |   |||| | || || ||| |||| || ||||||||||| | || |||||||||||||||||||||||||| |||
gttttgcgattttagtctgaagtttt----gctcctgtgcaaatcatgtttttgtatactatgctatattttgatttcgt---ttagttgttaaatt--ttcatctctatttttttttgtagGTTTGCACATTACAATTTTGGGCTGCAATGATTTCTATTCTTATAGAAAACAG
















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|22489427|gb|BU049350.1|BU049350
EST:     GGATGTAGTAGATAAGTTGCTGCTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
genomic: GGATGTAGTAGATAAGTTGCTGCTGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
EST: gi|17970040|gb|BM276808.1|BM276808
EST:     GGATGTAGTAGATAAGTTGCTGCGTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAG
genomic: GGATGTAGTAGATAAGTTGCTGC-TGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAG
EST: gi|78093392|gb|DV521766.1|DV521766
EST:     CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
genomic: CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
EST: gi|101392374|gb|EB818116.1|EB818116
EST:     CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
genomic: CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
EST: gi|76285163|gb|DV024731.1|DV024731
EST:     CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
genomic: CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
EST: gi|12047185|gb|BF729324.1|BF729324
EST:     TATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
genomic: TATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
EST: gi|74234775|gb|DT642689.1|DT642689
EST:     CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
genomic: CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
EST: gi|71447563|gb|DR828613.1|DR828613
EST:     CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
genomic: CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
EST: gi|8576971|gb|BE129608.1|BE129608
EST:     TATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
genomic: TATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
EST: gi|101390541|gb|EB817205.1|EB817205
EST:     CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
genomic: CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
EST: gi|71308540|gb|DR790509.1|DR790509
EST:     CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
genomic: CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
EST: gi|78180064|gb|DV550437.1|DV550437
EST:     CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAG                         GTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC
genomic: CATTATTGATAAGGAGAGGAAGGATGTAGTAGATAAGTTGCTGCTGCAAGgttgtgaagc ... cttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atactactcgagcatatcattttttggggtaatatgtctcaacttcttgttgcagGTCTGAACATTACAATTCTTGGATGCAATGATTTCTATTCTTATAGAAAGCAG
                                          cttcttgtt  CT-rich tract
             atatcatttttt  TA-rich tract