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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcagcatgcagcatacctacttctgatcttcttacatgatgtgtttttgggttatgacaacaatttttttattacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGTGATGCGTGGGGATTTGGAACATGCGAATATTATTTTACCATCCATACCA

Basic information

species Zea mays
transcript GRMZM2G443953_T03
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 16
gtaagcagca-tgcagcatacctacttctgatcttc---ttaca-tgatgtgtttttgggttatgacaacaatttttttattacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGTGATGCGTGGGGATTTGGAACATGCGAATATTATTTTACCATCCATACCA
|||||    | | | || |   |  |||  |  ||    || || | || |    |    || ||   |  | |||||| |  ||||||  |||| || ||  | ||  | || |||||||||||||| ||||||||||||||||| |||||||||   || |||   ||| ||||||| || || 
gtaagtgaaacttctgcttggattattcaaagttttaaattgcagtaatcttgactacttttctgtttatcaattttttttctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATCCCC

upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 16
gtaagcagcatg-cagcatacctacttctgatcttcttacatgatgtgtttttgggttatgacaacaatttttttattacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGTGATGCGTGGGGATTTGGAACATGCGAATATTATTTTACCATCCATACCA
|||||  |       |  | | |  |||  |   ||| | |||  ||  |  ||  ||||      || | ||||| | ||||||  |||| || ||  ||||  | ||||||||||| ||||| |||||||| |||||||| |||||||||   || |||   ||| ||||||| || || 
gtaagtggatcaatggtttgcattattcaaaatatctca-atgcagtaatcctga-ttatt-ttttaactgttttact-cagTGTTATGGGATACACGCTACTTTTAAGTTTGATTGAATACAAGACACTTGTCATGCGTGGTGATTTGGAAAGGGCCAATGAAATTCTACCATCAATTCCT

upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 17
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 16
gtaagcagca-tgcagcatacctacttctgatcttc---ttaca-tgatgtgtttttgggttatgacaacaatttttttattacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGTGATGCGTGGGGATTTGGAACATGCGAATATTATTTTACCATCCATACCA
|||||    | | | || |   |  |||  |  ||    || || | || |    |    || ||   |  | || ||| |  ||||||  |||| || ||  | ||  | || |||||||||||||| ||||||||||||||||| |||||||||   || |||  |||| | ||||| || || 
gtaagtgaaacttctgcttggattattcaaagttttaaattgcaataatcttgactatttttctgtttatcaattgtttttctcagTGTTATGGGATACACACTGCTTTTAAGCTTGATTGAGTACAAGACACTTGTGATGCGTGGTGATTTGGAAAGGGCCAATGATATTCTGCCATCAATCCCC

upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 17
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 20
gtaagcagcatgcagcatacctacttctgatcttcttacatgatgtgtttttgggttatgacaacaatttttttattacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGTGATGCGTGGGGATTTGGAACATGCGAATATTATTTTACCATCCATACCA
|||||||| |||    |    ||    || |     |   |  |   ||  ||  || ||    | | ||| | ||||||||||  | || || ||||||||  | ||||||||||||||||| || |||||||||||||| ||||||||||| || |||    | ||||| || || || 
gtaagcag-atgttttactgttatgattgctaacaatgttttgtaacttactgacttctg-tgtccactttatgattacagTGTTATTGGATACACTTTACTTTTAAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGAGATTTGGAACAGGCTAATGAAGTCTTACCTTCAATTCCT

upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 17
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 16
-----------gtaagcagcatgcagca-tacctacttctgatcttcttacatgatgtgtttttgggttatgacaacaatt--tttttattacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGTGATGCGTGGGGATTTGGAACATGCGAATATTATTTTACCATCCATACCA
            |  |||| | |  | | |      |  |  |  | || | | |  | ||| |   ||| |       ||  |||| | | ||||||  |||| || || ||||| |||||||||||||||||||| || |||||||||||||| ||  ||||||  || |||    ||||||| || || || 
gtgagtggacttttggcagaaagggggagtggagggtggttgttgtattgc-taacatctttatta-ttaagttggtttttccttttcaatgcagTGTCATGGGATACACGTTACTTCTCAGTTTGATTGAGTACAAGACTCTTGTGATGCGTGGTGACCTGGAACGGGCCAATGAACTTTTACCTTCAATTCCC

upper sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 17
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 16
gtaagcagcatgcagcatacctacttctgatcttcttacatgatgtgtttttgggttatgacaacaatttttttat---------tacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGTGATGCGTGGGGATTTGGAACATGCGAATATTATTTTACCATCCATACCA
|| ||  |      | |     |||||||    ||| ||    | |||| |||   | |||    ||||| |||||         | ||||||  |||| ||||| ||||| |||| ||||||||||||||| |||||||| |||||||| || ||  ||| ||| | |   |||||||| |  || || 
gtgag-ggagcttgggagctgcacttctg-caatctgactgcttttgttcttgtaat-tgatctaaatttatttatgttatcttatgcagTGTTATGGGATATACCTTACTTCTCAATTTGATTGAGTACAAGACACTTGTAATGCGTGGAGACTTTCAACGTGCAAGTGAAATTTTACCTTTGATTCCT

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|5895850|gb|AW037096.1|AW037096
EST:     GGATATCTTGCTAACCAAAGTCGTGTATATCTTATTGACAAGGAATTTAA                         TGGGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGT
genomic: GGATATCTTGCTAACCAAAGTCGTGTATATCTTATTGACAAGGAATTTAAgtaagcagca ... tttattacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGT
EST: gi|160481629|gb|EY254461.1|EY254461
EST:     GGATATCTTGCTAACCAAAGTCGTGTATATCTTATTGACAAGGAATTTAA                         TGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGT
genomic: GGATATCTTGCTAACCAAAGTCGTGTATATCTTATTGACAAGGAATTTAAgtaagcagca ... tttattacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgatcttcttacatgatgtgtttttgggttatgacaacaatttttttattacagTGTGGTGGGTTATACTTTACTACTCAGTTTGATTGAGTACAAAACACTTGTGATGCGTGGGGATTTGGAACATGCGAATATTATTTTACCATCCATACCA
      ttcttac  putative branch site (score: 2)
                                         tttttttatt  putative PPT
                             ttatgacaacaatttt  TA-rich tract