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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtaatatttccaaagatttatgcttcattttttccctccccgtggcaactgaaaagtaatatacaaatgttgccggtattaagcttctcttcattgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG

Basic information

species Zea mays
transcript GRMZM2G043198_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G043198_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os08g42410.2 (Oryza sativa), 3'ss of exon 2
gtcagtaatatttccaaagatttatgcttcattttttccctccccgtggcaactgaaaagtaatatacaaatgttgccggtattaagcttctcttcattg-------ttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG
|| |||||| |||   | ||   |||||   |||   || |   | || ||      || |||| |   |||  |       | |||||||||||   ||       ||||||||||| ||||||||| | ||||| |||||||| ||||||||||| || || || ||||| |||
gtgagtaatttttatta-gaccaatgctgtctttggcccattatcatgacat-----aattaatttctgaatactaaata-gtaaagcttctctttcctgcaacattttgcagATATCGAAGGGTTTGTTAGACAAATATGGCCCTGATAGGGTTCTTGACACACCAATCACAGAG

upper sequence: GRMZM2G043198_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G02380.2 (Glycine max), 3'ss of exon 4
gtcagtaatatttccaaagatttat-gcttcattttttccctccccgtggcaactgaaaagtaatatacaaatgttgccggtattaagcttctcttcattgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG
                  | ||  | | ||  ||  ||   |   | || ||||          | ||  ||  |       | | | |||   |   |  ||  |||||||||||||  |||| || |||| ||||||||| |||||||| |||||||| |||||||||
---------------gttggttggttggttggttggtttagttgtcttgccaacctct---ccttttaagaacttcatta--acttaactttcttctttcattttagATATCCAAGGGGCTGCTCGAAAAGTTTGGCCCCGAGAGGGTTCTTGATACTCCAATCACTGAG

upper sequence: GRMZM2G043198_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G46380.2 (Glycine max), 3'ss of exon 4
gtcagtaatatttccaaagatttatgcttcattttttccctccccgtggcaactgaaaagtaatatacaaatgttgccggtattaagcttctcttcattgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG
||  ||  |  ||||  || |    |||| | || |     | || |  |  || || |                  |   |||||  |    |||||| |   |||||||||||||  |||| ||||||||||||||||| ||||||||||||||||| |||||||||
gttggt--tgcttccttagtt----gctttacttgtcttgccaccctctcctcttaagaa-----------------cttcattaacttaactttcatttt---agATATCCAAGGGGCTGCTCGACAAGTATGGCCCCGAGAGGGTTCTCGATACTCCAATCACTGAG

upper sequence: GRMZM2G043198_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G36540.2 (Glycine max), 3'ss of exon 4
gtcagtaatatttccaaagatttatgcttcattttttccctccccgtggcaactgaaaagtaatatacaaatgttgccggtattaagcttct--cttcatt-gttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG
                  | |   |  ||  ||  ||   |   | || ||||          | ||  ||  |    |   ||||  ||||  |||| ||  ||  |||||||||||||  |||| ||||||||||||||||| ||||||||||||||||| |||||||||
------------------gttggttagttagttagtttagttgtcttgccaacctct---ccttttaagaacttcattgac-ttaactttcttccttctttcattttagATATCCAAGGGGCTGCTCGACAAGTATGGCCCCGAGAGGGTTCTCGATACTCCAATCACTGAG

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|211444057|gb|FL415432.1|FL415432
EST:     GTTGGCGAATACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211273080|gb|FL371948.1|FL371948
EST:     GTTGGCGAATACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211491514|gb|FL426447.1|FL426447
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGG-TTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211003333|gb|FL404181.1|FL404181
EST:     GTTGGCGAATACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|148930818|gb|EC873192.2|EC873192
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211084499|gb|FL378037.1|FL378037
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|32828890|gb|CD968568.1|CD968568
EST:     GTTGGCGAATACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|32799489|gb|CD951725.1|CD951725
EST:     GTTGGCGAATACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCGGGTAGGGTTCTTGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|148953725|gb|EC899090.2|EC899090
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         AAATCCAAGGGTTTGCTTGAACA-GTATGGCCCCGATAGG
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGA-CAAGTATGGCCCCGATAGG
EST: gi|32804720|gb|CD956956.1|CD956956
EST:     GTTGGCGAATACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|38687965|gb|CK144996.1|CK144996
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|93281968|gb|EB674232.1|EB674232
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211431560|gb|FL401076.1|FL401076
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211311674|gb|FL419261.1|FL419261
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211503999|gb|FL380203.1|FL380203
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211056917|gb|FL385087.1|FL385087
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCCGATAGGGTTCTCGATAC
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCC-GATAGGGTTCTCGATAC
EST: gi|211395332|gb|FL395257.1|FL395257
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|8367328|gb|BE050273.1|BE050273
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTT
EST: gi|211017664|gb|FL418154.1|FL418154
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211499368|gb|FL394923.1|FL394923
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211423792|gb|FL402788.1|FL402788
EST:     GTTGGCGAATACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211063939|gb|FL426137.1|FL426137
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|32828953|gb|CD968631.1|CD968631
EST:     GTTGGCGAATACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211099620|gb|FL375433.1|FL375433
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211542664|gb|FL412592.1|FL412592
EST:     GTTGGCGAATACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211054277|gb|FL399886.1|FL399886
EST:     GTTGGCGAATACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211479962|gb|FL426376.1|FL426376
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|31357689|gb|CD442046.1|CD442046
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|20507600|gb|BQ279700.1|BQ279700
EST:     GTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211530195|gb|FL395784.1|FL395784
EST:     GTTGGCGAATACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCGGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
EST: gi|211016844|gb|FL388973.1|FL388973
EST:     GTTGGCGAGTACCAAGGTGCATACAAG                         ATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT
genomic: GTTGGCGAGTACCAAGGTGCATACAAGgtcagtaata ... attgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgaaaagtaatatacaaatgttgccggtattaagcttctcttcattgttgcagATATCCAAGGGTTTGCTTGACAAGTATGGCCCCGATAGGGTTCTCGATACTCCGATCACTGAG
                                    cttctcttcattgtt  CT-rich tract
     aaagtaatatacaaat  TA-rich tract