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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttacatgatataatcagtttctgttccagaattattatgtcaaaacatttgtttcagttcacatcatcgcaagcattaacttccccttgcccactttcagGTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGTACCAAACAGGAATATGAAAGGCTTCAAAAT

Basic information

species Zea mays
transcript GRMZM2G704032_T03
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G704032_T03 (Zea mays), 3'ss of exon 11
lower sequence: LOC_Os03g49900.1 (Oryza sativa), 3'ss of exon 11
gttacatgatataatcagtttctgttccagaattatt-atgtcaa-aacatttgtttcagttcacatcatcgcaag--cattaacttccc-cttgcccactttcagGTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGTACCAAACAGGAATATGAAAGGCTTCAAAAT
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-----gttacattctctcttttcattttattattgtttaccttattaatgttatgtgcactctattttatcataatataactattttcctacttattatctttcagGTATGGAGGCTCCAAGCAGCTTTGGGAGAGCAATCAGAAATTACCAAATGTACCAAGCAGGAATTTGAAAGGCTTCAAAAT

upper sequence: GRMZM2G704032_T03 (Zea mays), 3'ss of exon 11
lower sequence: GLYMA17G13040.1 (Glycine max), 3'ss of exon 11
-----gttacatgatataatcagt-ttctgttccagaattattatgtcaaaacatttgtttcagttcacatcatcgcaagcattaacttccccttgcccactttcagGTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGTACCAAACAGGAATATGAAAGGCTTCAAAAT
||| | | | ||| | || | | | |||| | | | || || | || || | |||| ||||| ||| || | | | |||||||||||| || ||||||||| | || |||||| ||||||| || |||| | | ||||||| |||||||| |||||||||
atttccttatgttctttgttcaatattaggaacaaaaattctcagg--aagccaataactttgttttccttcatt---agcat--gcttaaaattttcgaatgtcagGTTTGGAGACTCCAGGCAGCTCTTGGCGAACAAACTGAAATTACAAAGTTCAGCCAACAGGAGTATGAAAGACTTCAAAAT
















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|71761132|gb|DR959069.1|DR959069
EST:     AAAATGCCTAAAAAAGGACTTTGCAGAAGAG                         GTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
genomic: AAAATGCCT-AAAAAGGACCTTGCAGAAGAGgttacatgat ... ccactttcagGTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
EST: gi|149000343|gb|EE037503.2|EE037503
EST:     ATCCGCCAGAGGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAG                         GTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
genomic: ATCCGCCAGAGGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAGgttacatgat ... ccactttcagGTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
EST: gi|149107037|gb|EE188931.2|EE188931
EST:     ATCCGCCAGAGGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAG                         GTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
genomic: ATCCGCCAGAGGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAGgttacatgat ... ccactttcagGTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
EST: gi|110944040|gb|EE164197.1|EE164197
EST:     ATCCGCCAGAGGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAG                         GTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
genomic: ATCCGCCAGAGGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAGgttacatgat ... ccactttcagGTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
EST: gi|78023713|gb|DV492100.1|DV492100
EST:     GCCTAAAAAGGACCTTGCAGAAGAG                         GTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
genomic: GCCTAAAAAGGACCTTGCAGAAGAGgttacatgat ... ccactttcagGTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
EST: gi|148975093|gb|EE025660.2|EE025660
EST:     TTCCGCCAGAGGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAG                         GTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
genomic: ATCCGCCAGAGGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAGgttacatgat ... ccactttcagGTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
EST: gi|60356237|gb|DN223210.1|DN223210
EST:     ATCCGCCAGAGGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAG                         GTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT
genomic: ATCCGCCAGAGGTGGTTAGGAAAATGCCTAAAAAGGACCTTGCAGAAGAGgttacatgat ... ccactttcagGTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catttgtttcagttcacatcatcgcaagcattaacttccccttgcccactttcagGTTTGGAGGCTACAGGCAGCTTTGGGAGAACAATCTGAAATCACCAAGTGTACCAAACAGGAATATGAAAGGCTTCAAAAT
                            cattaac  putative branch site (score: 2)
 cttccccttgcccact  CT-rich tract
 attaactt  TA-rich tract