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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcagacaaacaaggggacaatcttactttattttatagttctgtttacttcatttattctggatctgacttttcacttctctttgtcaatagGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATGTCCCTGAACCTGTGATGTCCTTGGCAGTTTCACCTATATCTAAAGACTC

Basic information

species Zea mays
transcript GRMZM2G056393_T02
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G056393_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os03g36780.1 (Oryza sativa), 3'ss of exon 10
-------------------------------------------gtacgcagacaaacaaggggacaatct-tactttattttatagttctgtttacttcatttattctggatctgacttttcacttctctttg--tcaatagGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATGTCCCTGAACCTGTGATGTCCTTGGCAGTTTCACCTATATCTAAAGACTC
                                           ||||        || |    || || |   |||   |||   |||    ||     |||| |||||  |  | ||  | | || |  | |  |||||||| ||||||||||| |||||| ||||||||||||| |||||||| |||||||||||||||||||||||||||||||| || || |||||||||||||| ||
gtaaatttttgagtgaagtgtagggccacaggctattcaagaagtacctctgtccactatactaccatgtgctcttcgattttctgttgacattttcggatttgttctgtgttggtctgattatttgttctcgcatcaatagGTGATACATTTACAGATGGATCAGTGAAATATACCATGACTTCCATGAATGTCCCTGAACCTGTGATGTCCTTGGCTGTCTCCCCTATATCTAAAGATTC

upper sequence: GRMZM2G056393_T02 (Zea mays), 3'ss of exon 10
lower sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 10
----------gtacgcagacaaacaaggggacaatcttactttattttatagttctgtttacttcattt--attctggatctgacttttcacttctctttgtcaat-agGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATGTCCCTGAACCTGTGATGTCCTTGGCAGTTTCACCTATATCTAAAGACTC
           ||  |      ||  ||   | | ||||   || |||     |||    |    | |   ||  ||  | |    ||      || ||  | ||| ||| |||||||||||||||||| |||| || || || ||||| || ||||| || ||||||||||| |||||||| || |||  |||  | || ||||| ||
gtacagtaaaatattcttgtgtacttggtt-cgaacttaacataatttgcttctctagggatgaaagtctgatattgtgtttcttgttgggtcacttttcctaaatcagGTGATACATTTACGGATGGATCAGTCAAGTACACGATGACATCGATGAACGTTCCTGAACCTGTTATGTCCTTAGCTGTTCAACCGGTTTCAAAAGATTC

upper sequence: GRMZM2G056393_T02 (Zea mays), 3'ss of exon 10
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 10
--------gtacgcagacaaacaaggggacaatcttactttattttatagttctgtttacttcattt--attctggatctgacttttcacttctctttgtcaat-agGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATGTCCCTGAACCTGTGATGTCCTTGGCAGTTTCACCTATATCTAAAGACTC
          |           |   |  | | ||||   || |||     ||||   |    |||   ||  ||  | ||   ||       | ||  | ||| ||| |||||||||||||||||| |||| || || || ||||| || ||||| || ||||||||||| |||||||| || |||  |||  | || ||||| ||
gtacagtaaaatattcttccgtacttgttcgaacttaacataatttgcttctctggggatgaaattctgatattgtgtttgttgttgggtcaattttcctaaatcagGTGATACATTTACGGATGGATCAGTCAAGTACACAATGACATCGATGAACGTTCCTGAACCTGTTATGTCCTTAGCTGTTCAACCAGTTTCAAAAGATTC

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|32930091|gb|CF034903.1|CF034903
EST:     AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAG                         GCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
genomic: AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAGgtacgcagac ... ttgtcaatagGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
EST: gi|67019503|gb|CO448252.1|CO448252
EST:     GCATATGCTGGGCCAAAT-GTTGCTGTTTTTGGTGGTGATTGTGCATCAG                         GCGATACATTTACGGATGGGACAGTGAAATATACTATGACTTCAATGAATG
genomic: GCATATGCTGG-CCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAGgtacgcagac ... ttgtcaatagGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
EST: gi|91874831|gb|EB404788.1|EB404788
EST:     AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAG                         GCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
genomic: AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAGgtacgcagac ... ttgtcaatagGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
EST: gi|211410070|gb|FL355701.1|FL355701
EST:     AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAG                         GCGATACATTTACGGATGGAACAGTGAAATATACTATGACTT-AATGAATG
genomic: AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAGgtacgcagac ... ttgtcaatagGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
EST: gi|118406757|gb|EH038205.1|EH038205
EST:     AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAG                         GCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
genomic: AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAGgtacgcagac ... ttgtcaatagGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
EST: gi|211409847|gb|FL347405.1|FL347405
EST:     AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAG                         GCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
genomic: AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAGgtacgcagac ... ttgtcaatagGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
EST: gi|67017174|gb|CO445923.1|CO445923
EST:     AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAG                         GCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
genomic: AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAGgtacgcagac ... ttgtcaatagGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
EST: gi|211430479|gb|FL350077.1|FL350077
EST:     AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAG                         GCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG
genomic: AGCATATGCTGGCCAAATTGTTGCTGTTTTTGGTGTTGATTGTGCATCAGgtacgcagac ... ttgtcaatagGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttctgtttacttcatttattctggatctgacttttcacttctctttgtcaatagGCGATACATTTACGGATGGAACAGTGAAATATACTATGACTTCAATGAATGTCCCTGAACCTGTGATGTCCTTGGCAGTTTCACCTATATCTAAAGACTC
                         atctgac  putative branch site (score: 3)
                          tctgacttttcacttc  CT-rich tract
      tttacttcatttatt  TA-rich tract