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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactaatttggcagtttggctgtcatactataagggtggtggtgtattgaatgcgtgagatgaatagctaatcatctattgggtactgaatgacatacaaaattcattgctgcctcttttttttctactgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGAGAGATTCTGATCAG

Basic information

species Zea mays
transcript GRMZM2G058252_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G058252_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g43620.1 (Oryza sativa), 3'ss of exon 3
gtactaatttggcagtttggctgtcatactataagggtggtggtgtattgaatgcgtgagatgaata-gctaatcatcta---ttgggtactgaatgacatacaaaattcatt-gctgcctctt-----ttttttctactgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGAGAGATTCTGATCAG
                                    ||  || | | |    |   | || | |||  | | | ||||||   ||   ||   |   |||| | | ||||||| ||||    ||     | |   ||||||| | ||||| || || || |||||||| |||||||| |||||||||||||||||||||||||| ||||| ||
------------------------------------gtattgttttgtgctttatttcagttaaattcgttcaccatctaccctttaatatgaatcaacatgccatattcatttgctgtaatttactcgtgtcccctactgctttcagCTGGCTAATACAGAGGAGTATATTGATGGACAATTCTCTGGAAACCTGGGAGAGATACTGATTAG

upper sequence: GRMZM2G058252_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g08090.2 (Oryza sativa), 3'ss of exon 4
gtactaatttggcagtttggctgtcatactataagggtggtggtgtattgaatgcgtgagatgaatagctaatcatctattgggtactgaatgacatacaaaattcatt-gctgc----ctcttttttttctactgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGAGAGATTCTGATCAG
                                  |  |  |  ||||||   ||  | || | |||      |||| ||     ||  ||  ||| |   |  ||| || |||||      | |  || |||||||| | ||||| || || || |||||||| |||||||| ||||||||||||||| |||| ||||| ||||| ||
----------------------------------gtattattttgtattt--tgtatcagttaaat--tcgttcatttaccaa-tatggatcgacgtgtcatcttcttttgctgcaatttacctaattgtctactgctttcagCTGGCTAATACAGAGGAGTATATTGATGGGCAATTCTCTGGAAACTTGGGTGAGATACTGATAAG

upper sequence: GRMZM2G058252_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g08090.1 (Oryza sativa), 3'ss of exon 3
gtactaatttggcagtttggctgtcatactataagggtggtggtgtattgaatgcgtgagatgaatagctaatcatctattgggtactgaatgacatacaaaattcatt-gctgc----ctcttttttttctactgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGAGAGATTCTGATCAG
                                  |  |  |  ||||||   ||  | || | |||      |||| ||     ||  ||  ||| |   |  ||| || |||||      | |  || |||||||| | ||||| || || || |||||||| |||||||| ||||||||||||||| |||                
----------------------------------gtattattttgtattt--tgtatcagttaaat--tcgttcatttaccaa-tatggatcgacgtgtcatcttcttttgctgcaatttacctaattgtctactgctttcagCTGGCTAATACAGAGGAGTATATTGATGGGCAATTCTCTGGAAACTTGG----------------

upper sequence: GRMZM2G058252_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G07060.1 (Glycine max), 3'ss of exon 3
gtactaatttggcagtttggctgtcatactataagggtggtggtgtattgaatgcgtgagatgaatagctaa-tcatctattgggtactgaatgacatacaaaattcattgctgcctctttt--ttttctactgcgt--gcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGAGAGATTCTGATCAG
                                                            ||  ||| |||| | |  | || |||       | | |      ||  | ||| |   | ||  |||| || |   |  | |||| |||||||| |||||||||||||| || |||||  |||||||  ||||||||||| | |||||
----------------------------------------------------------gtatatatatctaaattaatttttaggtgtctgggggc-tcttggcttagtcgctactaatattaattttttattatctttgtagCTGGCCAACACCGAGGAGTACATTGAGGGACAATTTACTGGAAATTTGGGAGAGATTTTAATCAG

upper sequence: GRMZM2G058252_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT2G14285.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------gtactaatttggcagtttggctgtcatactataagggtggtggtgtattgaatgcgtgagat---gaatagctaatcatctattgggtactgaatgacatacaaa------attcattgctgcc-------tcttttttttctactgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGAGAGATTCTGATCAG
                            |  |   ||    | |   ||   |  || |  |    || ||| || ||      |      ||| | ||| || |  | |   |    |  || | | | |      ||||||||  | |       | ||   |   |  |   || |||| |  ||||| ||||| ||||||||||| |||||  | |||||||| ||||||||| |||||||
gtatggtcttagcttctatgttcaactcaagatcatgttcttgtcattgaagttttaaacagagattgatgttttcaaatttcaatgcttagaaaatctattcttagagtctatgtatagagatacatagatcgtttattcattgtagtcattgagattttccatgcttgttttttgtagCTAGGAAACACCGAGGAATACATTGATGGGCAATTGACAGGAAACCTTGGAGAGATTTTGATCAG

upper sequence: GRMZM2G058252_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv00s0220g00030.t01 (Vitis vinifera), 3'ss of exon 3
gtactaatttggcagtttggctgtcatactataagggtggtggtgtattgaatgcgtgagatgaatagctaatcatctattgggtactgaatgacatacaaaattcattgctgcctcttttttttctactgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGAGAGATTCTGATCAG
               ||||  | |  ||| | |  ||  |    |  |||           | | |   |    || || ||     ||       | || ||||||| |    || ||| |            |||||| ||||||| ||| || ||||||||||| || ||| |||||||||| ||||||||| |||||||
---------------tttgtttctgctaccaaactggctgctaagctttg-----------tcagtgtttgtgtatatactgatggttggtgatgtttcataattcatgggaatctttttct------------gcagCTGGCCAACAGTGAAGAATACATTGATGGACAGTTCACTGGAAACCTTGGAGAGATTTTGATCAG

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|18176423|gb|BM351382.1|BM351382
EST:     GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
genomic: GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
EST: gi|9733260|gb|BE512012.1|BE512012
EST:     GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
genomic: GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
EST: gi|18168539|gb|BM338379.1|BM338379
EST:     GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
genomic: GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
EST: gi|91878488|gb|EB408445.1|EB408445
EST:     GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
genomic: GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
EST: gi|32932015|gb|CF036827.1|CF036827
EST:     GTACAAGGGTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAATACATTGATGGTCAATTCTCTGGAAACCTGGGA
genomic: GTACAAGGGTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
EST: gi|6020407|gb|AW065335.1|AW065335
EST:     GCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGNAAACCTGGGA
genomic: GCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
EST: gi|30052148|gb|AI065437.2|AI065437
EST:     GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
genomic: GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
EST: gi|9953187|gb|BE639770.1|BE639770
EST:     GTTATCTTGCGTTCTGTGGACTCATATATGNAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGG
genomic: GTTATCTTGC-TTCTGTGGACTCATATATG-AATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGG
EST: gi|91878487|gb|EB408444.1|EB408444
EST:     GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTTTCTGGAAACCTGGGA
genomic: GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
EST: gi|15053713|gb|BI359258.1|BI359258
EST:     GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
genomic: GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
EST: gi|45847499|gb|CN071442.1|CN071442
EST:     GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
genomic: GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
EST: gi|211437155|gb|FL418511.1|FL418511
EST:     GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
genomic: GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
EST: gi|15053712|gb|BI359257.1|BI359257
EST:     GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAG                         CTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA
genomic: GTTATCTTGCTTCTGTGGACTCATATATGAATCTCCAGgtactaattt ... ctgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtactgaatgacatacaaaattcattgctgcctcttttttttctactgcgtgcagCTTGCCAACACTGAGGAGTACATTGATGGTCAATTCTCTGGAAACCTGGGAGAGATTCTGATCAG
                    ttcattgctgcctctt  CT-rich tract
            atacaaaattcatt  TA-rich tract