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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtatctcttgctctggcagtttggctccctctgccatgcatgcatataagaaatattattgcccccctagatgtgagtctaataagaagcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTTGATCCAAATAGGCACTATGCCATTTTCCAAATTCCTGATCCTTCAAAAC

Basic information

species Zea mays
transcript GRMZM2G002440_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G002440_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g25090.2 (Oryza sativa), 3'ss of exon 4
gtgtatctcttgctctggca-gtttggctccctctgccatgcatgcatataagaa---atattattgcccccctagatgtgagtctaataagaagcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTTGATCCAAATAGGCACTATGCCATTTTCCAAATTCCTGATCCTTCAAAAC
  ||| |      ||   |   ||| | |||   |||  ||| ||  || |  ||   | ||  ||   |  | | | |  | |  || |   |     ||||||||||||||||||||||||| ||||||||||||||  | |||||||| ||||||||||||| |||   |||  |||||||||||||||||||||||||||
-ggtaacatgcattcaaacttattttgatcctgttgct-tgcgtgtttacacaaatttacatctttatgcagcaaaaaggcaat--aacatttaatgtgtgcagGTCTTCAAGAAGTTTGGAGTGGAAAAGTTTGATCCACTTAATGAGAAATTTGATCCAAATAAGCATGCTGCGCTTTTCCAAATTCCTGATCCTTCAAAAC
















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|5922290|gb|AW055579.1|AW055579
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|50332490|gb|CO527616.1|CO527616
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|37394200|gb|CF634371.1|CF634371
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|5819185|gb|AI987391.1|AI987391
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|5847121|gb|AW000200.1|AW000200
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTNTTGATCCTTTNTGAANNTGAG
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTT-T-GATCCTTT--GAA--TGAG
EST: gi|13237180|gb|BG355194.1|BG355194
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|67042408|gb|CO468663.1|CO468663
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|18659614|gb|BM500430.1|BM500430
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|32934212|gb|CF039024.1|CF039024
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|88754856|gb|DY538997.1|DY538997
EST:     GCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: GCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|21828625|gb|BQ703309.1|BQ703309
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|74234069|gb|DT641983.1|DT641983
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|5343189|gb|AI795374.1|AI795374
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
EST: gi|16378404|gb|BI992428.1|BI992428
EST:     TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAG                         GTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT
genomic: TGAAAACCCTACTAGAGGGTGTTGAGATGACTGAGAAGCAACTTGGAGAGgtatttcttc ... gcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atataagaaatattattgcccccctagatgtgagtctaataagaagcacttgcagGTCTTCAAGAAGTTTGGAGTTGAAAAGTTTGATCCTTTGAATGAGAAGTTTGATCCAAATAGGCACTATGCCATTTTCCAAATTCCTGATCCTTCAAAAC
                                 gtctaat  putative branch site (score: 3)
     agaaatattatt  TA-rich tract