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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagttgtcctttgatgccttgcccttttcaagtttagttgcttaggtatactttgttgatatagatctgaactctgtagGTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGTGTTCAACTTCATGTCGGCGATGGTATGTAGATAATTCCATGAGGCTATG

Basic information

species Zea mays
transcript GRMZM2G060896_T04
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G060896_T03 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os02g15550.1 (Oryza sativa), 3'ss of exon 6
gtaa-agttgtcctttgatgccttgcccttttcaagtttagttgcttaggtatactttgttgatatagatctgaactctgtagGTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGTGTTCAACTTCATGTCGGCGATGGTATGTAGATAATTCCATGAGGCTATG
|||| | || |||||||||   |       |  | ||    ||||  |   | |||||  ||||||  |||| || | ||||||| || ||||||||||||||| | || |||||||||||  |||||||||||||||  |||||||| || ||||                           
gtaacaattctcctttgatatttgaataaatatatgtc--attgcacaa-caaactttcctgatatgcatcttaattatgtagGTTTGTAAAGATTTCTTCCCAGATTTATCTGTTGGATTCAAAGATCCTCGTGTTCGGCTTCATGTTGGTGATG---------------------------
















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|19057826|gb|BM736493.1|BM736493
EST:     GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGAT                         GTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT
genomic: GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGATgtaaagttgt ... aactctgtagGTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT
EST: gi|71305271|gb|DR788769.1|DR788769
EST:     GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGAT                         GTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT
genomic: GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGATgtaaagttgt ... aactctgtagGTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT
EST: gi|87153794|gb|DY398583.1|DY398583
EST:     GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGAT                         GTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT
genomic: GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGATgtaaagttgt ... aactctgtagGTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT
EST: gi|19057747|gb|BM736414.1|BM736414
EST:     GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGAT                         GTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT
genomic: GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGATgtaaagttgt ... aactctgtagGTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT
EST: gi|19058302|gb|BM736969.1|BM736969
EST:     GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGAT                         GTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT
genomic: GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGATgtaaagttgt ... aactctgtagGTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT
EST: gi|74240569|gb|DT648483.1|DT648483
EST:     GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGAT                         GTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTTCA-GATCCTCG
genomic: GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGATgtaaagttgt ... aactctgtagGTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTT-CAAGATCCTCG
EST: gi|22490603|gb|BU050526.1|BU050526
EST:     GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGAT                         GTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT
genomic: GTTCAGTGGAGTCCATTGACATATGTGAGATTGATCAGCTGGTTATTGATgtaaagttgt ... aactctgtagGTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcaagtttagttgcttaggtatactttgttgatatagatctgaactctgtagGTGTGCAAAGATTTCTTCCCACACTTGTCTGTTGGATTTCAAGATCCTCGTGTTCAACTTCATGTCGGCGATGGTATGTAGATAATTCCATGAGGCTATG
                             tgttgat  putative branch site (score: 4)
                      tatacttt  TA-rich tract