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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttgcctctactcaaatcctctcaactgaattaagattattaattcactgtttgaagcttttcatatagtttctctttctgccagCCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGCCGTGATGGTAGCATATGCAAG

Basic information

species Zea mays
transcript GRMZM2G058584_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G058584_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g13190.1 (Oryza sativa), 3'ss of exon 5
gtatgcttgcctctactcaaatcctctcaactgaattaagattattaattcactgtttgaagcttttcatatagtttctctttctgccagCCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGCCGTGATGGTAGCATATGCAAG
||||| |    | | || ||||  | | |||| | | |   |  |    |   | |||  |  ||   |||     ||||||||||||||||||||||||||||||| ||||||||| |||||||||||||||| ||||| ||||||||||||||||| |||
gtatggtcatgttttcttaaattgtgttaactca-tcattctcttctcattgttttttacaatttaatatagtaaatctctttctgccagCCTGCACAGATTGCTGGTTGCAAAACTGTTGTTCTTGCCACACCCCCTAGTCGTGATGGTAGCATATGTAAG

upper sequence: GRMZM2G058584_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 4
----------------------------gtatgcttgcctctactcaaatcctctcaactgaattaagattattaattcactgtttgaagcttttca---tatagtttctctttctgccagCCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGCCGTGATGGTAGCATATGCAAG
                            |||   |||       ||  ||  |  ||     |||     || | ||   || |||| |  || |     | |  ||  | | | |||||||||||||||||||||||||| ||||||||||| ||||| || || ||    |  |||||||  |||||||||
gtaagttgaattgatgtctaactagtttgtagtattgttctccatcctatagttgcattgtgattgttgataatcatcatctttttggattttgttgatctttgattgttttatatgccagCCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCTCAGGATGGTACTATATGCAAG

upper sequence: GRMZM2G058584_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA15G13910.1 (Glycine max), 3'ss of exon 5
----------------------------gtatgcttgcctctactcaaatcctctcaa-ctgaattaagattattaattcactgtttgaagcttttcatatagtttctctttctgccagCCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGCCGTGATGGTAGCATATGCAAG
                             ||||  |  |  |  || |    | |    ||| ||   | |  |||  |  |    |  ||||  |  | || ||  | | | | |||||||||||| ||||| ||||| ||||||||||||||||| |  || || |  || ||||| |  | |||||||
gtaagttgaatagacatttcagttcctcttatgactttcaatgttctataattttggttctgtatattggtatttatctagccagatttagctgatggt-taattattttgtataccagCCTGCACAAATTGCAGGATGTAAAACTATTGTTCTTGCAAATCCTCCAACTCGGGATGGCACTACATGCAAG

upper sequence: GRMZM2G058584_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA09G02960.1 (Glycine max), 3'ss of exon 5
----------------------------gtatgcttgcctctactcaa--atcctctcaactgaattaagattatta-attcac--tgtttgaagcttttcata--tagtttctctttctgccagCCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGCCGTGATGGTAGCATATGCAAG
                             ||||| |  |  |  || |  ||  |   |    ||||   ||  ||  ||| |   |||  |||     | |    || ||  | | | | |||||||||||| ||||| ||||| ||||||||||||||||| |  || || |  || ||||| |  | |||||||
gtaagttgaatagatatttctgttcctcttatgcctttcaatgttctacaattttgatattgtaatttgtatatttgtatttatcttgtcagaattagctgacggttaattattttgtttaccagCCTGCACAAATTGCAGGATGTAAAACTATTGTTCTTGCAAATCCTCCAACTCGGGATGGCACTACATGCAAG

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|89758985|gb|DY687956.1|DY687956
EST:     TCCCAGGTGGCACTGCAGTCTTGCCTTCAACTGCATTGATGCTTGCTGTG                         CCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGC
genomic: TCCCAGGTGGCACTGCAGTCTTGCCTTCAACTGCATTGATGCTTGCTGTGgtatgcttgc ... tttctgccagCCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGC
EST: gi|76012899|gb|DT940069.1|DT940069
EST:     TCCCAGGTGGCACTGCAGTCTTGCCTTCAACTGCATTGATGCTTGCTGTG                         CCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGC
genomic: TCCCAGGTGGCACTGCAGTCTTGCCTTCAACTGCATTGATGCTTGCTGTGgtatgcttgc ... tttctgccagCCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGC
EST: gi|211215840|gb|FL096753.1|FL096753
EST:     TCCCAGGTGGCACTGCAGTCTTGCCTTCAACTGCATTGATGCTTGCTGTG                         CCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGC
genomic: TCCCAGGTGGCACTGCAGTCTTGCCTTCAACTGCATTGATGCTTGCTGTGgtatgcttgc ... tttctgccagCCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGC
EST: gi|211320051|gb|FL096754.1|FL096754
EST:     TCCCAGGTGGCACTGCAGTCTTGCCTTCAACTGCATTGATGCTTGCTGTG                         CCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGC
genomic: TCCCAGGTGGCACTGCAGTCTTGCCTTCAACTGCATTGATGCTTGCTGTGgtatgcttgc ... tttctgccagCCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaagattattaattcactgtttgaagcttttcatatagtttctctttctgccagCCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGCCGTGATGGTAGCATATGCAAG
       tattaat  putative branch site (score: 2)
                                       tttctctttctgcc  putative PPT
     attattaattcact  TA-rich tract