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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagctactaaacatttatcagttgcaacacatttgtagcatgcagatgtttatattgatctgaaacatgatctatgtgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAATGGTGACATTCTCGCAAGGCCAATGATGTTCCTTGCGCTGACATATGACC

Basic information

species Zea mays
transcript GRMZM5G807639_T02
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G807639_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os04g32330.1 (Oryza sativa), 3'ss of exon 12
gtagctactaaacatttatcagttgcaaca--catttgtagcatgcagatgtttatattgatctgaaaca-tg-atctatgtgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAATGGTGACATTCTCGCAAGGCCAATGATGTTCCTTGCGCTGACATATGACC
||  ||  |  |  |||  || |||||| |         |  | |  ||| || ||  | |||||| ||| || || ||| |  |||||||||  | ||||| || ||||| |||||||| |||||||||||||| ||| | ||  |||||||||| ||||||||||||| ||||||||||||||||||||
gtc-ctttttcatttttgccacttgcaaaaattgccctcactaggttgatattcat--tcatctgacacaatgtatatatatctaatgcagTCTGCTATTCTTGGAATGCACTCCATTGTACAACGCCCTGTGGTCGTGGACGGCAACATTCTCGCGAGGCCAATGATGTACCTTGCGCTGACATATGACC
















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|93017174|gb|EB642694.1|EB642694
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|6918669|gb|AW400199.1|AW400199
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|32935625|gb|CF040437.1|CF040437
EST:     GTAGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|211354774|gb|FL462364.1|FL462364
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|16925492|gb|BM078560.1|BM078560
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|5871687|gb|AW018158.1|AW018158
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|60343714|gb|DN210687.1|DN210687
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|6020821|gb|AW065749.1|AW065749
EST:     GTGGTGTCTATGGAAGCCTNCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGNTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|16919656|gb|BM074297.1|BM074297
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|32866729|gb|CF006411.1|CF006411
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|16926010|gb|BM079078.1|BM079078
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|30306816|gb|CD001489.1|CD001489
EST:     CTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: CTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|60349623|gb|DN216596.1|DN216596
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|6918383|gb|AW399913.1|AW399913
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|211104574|gb|FL031920.1|FL031920
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
EST: gi|60399105|gb|DN231919.1|DN231919
EST:     GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAG                         TCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT
genomic: GTGGTGTCTATGGAAGCCTCCTCAGCACACCTATCATCAACCCCCCACAGgtagctacta ... tgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtagcatgcagatgtttatattgatctgaaacatgatctatgtgaaatgcagTCGTCAATTCTGGGGATGCATTCCATTGTGCAACGCCCTGTGGTTGTGAATGGTGACATTCTCGCAAGGCCAATGATGTTCCTTGCGCTGACATATGACC
                     tattgat  putative branch site (score: 3)
              atgtttatattgat  TA-rich tract