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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatatatgaagcaattaaaatctactgtttccctttcccccaccgccaccggatgctattcccttcaagtcccgcgactaatttccagcgacatgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTGGTACGATCTTGCGTACGGGAGGGACCATTTCTTCATCTACCTCTTCTTC

Basic information

species Zea mays
transcript GRMZM2G105631_T05
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G105631_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g09930.1 (Oryza sativa), 3'ss of exon 8
gtatatata--tgaagcaattaaaatctactgtttccctttcccccaccgccaccggatgctattcccttcaagtcccgcgactaatttccagcgacatgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTGGTACGATCTTGCGTACGGGAGGGACCATTTCTTCATCTACCTCTTCTTC
|||   | |  |||    |  |||| ||         ||||    |        | | |  |  | |  | |  ||  | ||| ||||||   |  | |  | ||||||  |||||||||||||||| ||||| || |||||||||||||| || ||||| |||||||| | ||||| ||||||||||||||||||||||||||||
gtaagaaaaattgatcagaacaaaaactctgccaaatctttataactgttttctcagctcatgattcactgatttcgagtgac-aatttcttcc--cttttttcagGCTAAACGTCACGGAGCTCGGCGTGGCGGCATTCCTCTTCTCCTGTGGATGGTATGATCTTGCATTCGGGAAGGACCATTTCTTCATCTACCTCTTCTTC
















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|60353686|gb|DN220659.1|DN220659
EST:     TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAG                         GCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
genomic: TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAGgtatatatat ... catgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
EST: gi|93284005|gb|EB676269.1|EB676269
EST:     TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAG                         GCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
genomic: TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAGgtatatatat ... catgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
EST: gi|60336764|gb|DN203737.1|DN203737
EST:     TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAG                         GCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
genomic: TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAGgtatatatat ... catgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
EST: gi|29544715|gb|CB605095.1|CB605095
EST:     TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAG                         GCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
genomic: TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAGgtatatatat ... catgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
EST: gi|78110271|gb|DV528686.1|DV528686
EST:     TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAG                         GCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
genomic: TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAGgtatatatat ... catgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
EST: gi|76292862|gb|DV032430.1|DV032430
EST:     TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAG                         GCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
genomic: TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAGgtatatatat ... catgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
EST: gi|29167909|gb|CB411169.1|CB411169
EST:     TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAG                         GCTGCACGTCACGGAGCTCGGGG
genomic: TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAGgtatatatat ... catgatgcagGCTGCACGTCACGGAGCTCGGGG
EST: gi|15427286|gb|BI543108.1|BI543108
EST:     TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAG                         GCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
genomic: TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAGgtatatatat ... catgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
EST: gi|71761578|gb|DR959515.1|DR959515
EST:     TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAG                         GCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
genomic: TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAGgtatatatat ... catgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
EST: gi|116829022|gb|EC863362.1|EC863362
EST:     TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAG                         GCTGCACGTCACGGAGCT
genomic: TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAGgtatatatat ... catgatgcagGCTGCACGTCACGGAGCT
EST: gi|71298388|gb|DR785175.1|DR785175
EST:     TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAG                         GCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG
genomic: TCGGCTAACAAAGCGGGGCTCAGGAAGCAGTTCATGAGGATATGGGAGAGgtatatatat ... catgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caccggatgctattcccttcaagtcccgcgactaatttccagcgacatgatgcagGCTGCACGTCACGGAGCTCGGGGTGGCAGCCTTCCTCTTCTCCTGCGGCTGGTACGATCTTGCGTACGGGAGGGACCATTTCTTCATCTACCTCTTCTTC
                             gactaat  putative branch site (score: 2)
                              actaattt  TA-rich tract