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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAAAGAAATAGTTGCGCAAAATAAAGGGAATACTGTGCTTGAATTGCAGCAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAAgtgagtggcagattctgcaattattgaggatcattttgtattccatagtttgtcaaagtgaggataatgctggtgtatgcgcag

Basic information

species Zea mays
transcript GRMZM2G017421_T01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017421_T01 (Zea mays), 5'ss of exon 13
lower sequence: LOC_Os06g07090.1 (Oryza sativa), 5'ss of exon 13
TAAAAGAAATAGTTGCGCAAAATAAAGGGAATACTGTGCTTGAATTGCAGCAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAAgtgagtggcagattctgcaattattgaggat-cattttgtattccata-gtttgtcaaagtgaggataa---------tgctggtgtatgcgcag
|||| ||||||||||| || |||||||||||||||||||||||| | || || || || ||||||||||  ||||||||||| || |||||||| |||||||| ||| |||||||||| |||  || || | | || | || |  ||  |||| |  |||  ||  |||         ||||| ||||||  |||
TAAAGGAAATAGTTGCACAGAATAAAGGGAATACTGTGCTTGAACTACAACAGAGGTCAATTGAATTCAACTCCATTATACAGAGGCATCAGTCTATAAAgtgggtgacagattctgccattgctgtgggtgctttctctaatatatttgtttctgtaagatagattaaccttgaggatgctgttgtatgaacag

upper sequence: GRMZM2G017421_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA01G03890.1 (Glycine max), 5'ss of exon 13
TAAAAGAAATAGTTGCGCAAAATAAAGGGAATACTGTGCTTGAATTGCAGCAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAAgtgag--tggcagattctgcaattattgaggatcattttgtattccatagtttgtcaaagtgaggataatgctggtgtatgcgcag
| ||||||||  |||  ||    |||||||    |||||| ||||||||||| ||| |||||||||||| ||| |||||   ||  |||||    || | |||||  |     ||      |||||     ||||   |  ||   || ||    ||   | |  | ||  |||   | || ||||
TCAAAGAAATTATTGTTCAGTTCAAAGGGAGCTTTGTGCTAGAATTGCAGCAGAGAGCTATTGAATTCAATTCGATTATTGCAAAGCATCAAAATATTAGgtgaggttaattaatctgcttattatattatatcaagat-catggaattgtaccacactttcataagaa-actgtcat-tgtgcag

upper sequence: GRMZM2G017421_T01 (Zea mays), 5'ss of exon 13
lower sequence: GLYMA02G03800.1 (Glycine max), 5'ss of exon 12
TAAAAGAAATAGTTGCGCAAAATAAAGGGAATACTGTGCTTGAATTGCAGCAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAAgtgagtggcagattctgcaattattgaggatcattttgtattccatagtttgtcaaagtgaggataatg--ctggtgtatgcgcag
| ||||||||  |||  ||    |||||||    |||||| ||||||||||| ||  |||||||||||||||| |||||   ||  |||||    || | ||||  ||   |||   |   | || |   |   |    ||  |  | ||   |||       ||||    |||   | || ||||
TCAAAGAAATTATTGTTCAGTTCAAAGGGAGCTTTGTGCTAGAATTGCAGCAGAGGGCTATTGAATTCAGTTCGATTATTTCAAAGCATCAAAATATTAGgtga--ggttaattaatctgctttttatattgtatcaagatcacggaattgtacaacactttcataagaaactgtcat-tgtgcag

upper sequence: GRMZM2G017421_T01 (Zea mays), 5'ss of exon 13
lower sequence: Vv01s0026g00310.t01 (Vitis vinifera), 5'ss of exon 13
TAAAAGAAATAGTTGCGCAAAATAAAGGGAATACTGTGCTTGAATTGCAGCAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAAgtgagtggcagattctgcaattattgaggatcattttgtattccatagtttgtcaaagtgaggataatgctggt---gtatgcgcag--------------------------------
|||  || ||| |||  ||   |||||| |    |||||||||||||||||| ||||| |||||||| | |||||||||    |  |||||    || | ||  |     ||   |   | ||||  | ||||||  ||  |  ||   || ||      |   |    |  ||   | ||   ||                                 
TAAGGGATATAATTGTCCAGTGTAAAGGAAGCCTTGTGCTTGAATTGCAGCAGAGATCCATTGAATTTAATTCCATTATTGGGAAGCATCAAAATATCAGgtatgcatttgaaagttgtaatattttgtatcattcagtgcttgatgtcttttccccagaaatttgccacatgtaaagcatatccatcttttaaagaagttctggatgaatgtctacag

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|12047104|gb|BF729243.1|BF729243
EST:     CAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAA                         ATCATCTTTGCTTGAACGTATGCCTGCATTGGATGAAGCAAATTATTTGGT
genomic: CAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAAgtgagtggca ... gtatgcgcagATCATCTTTGCTTGAACGTATGCCTGCATTGGATGAAGCAAATTATTTGGT
EST: gi|8551657|gb|BE128828.1|BE128828
EST:     CAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAA                         ATCATCTTTGCTTGAACGTATGCCTGCATTGGATGAAGCAAATTATTTGGT
genomic: CAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAAgtgagtggca ... gtatgcgcagATCATCTTTGCTTGAACGTATGCCTGCATTGGATGAAGCAAATTATTTGGT
EST: gi|32931345|gb|CF036157.1|CF036157
EST:     CAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAA                         ATCATCTTTGCTTGAACGTATGCCTGCATTGGATGAAGCAAATTATTTGGT
genomic: CAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAAgtgagtggca ... gtatgcgcagATCATCTTTGCTTGAACGTATGCCTGCATTGGATGAAGCAAATTATTTGGT
EST: gi|78180334|gb|DV550707.1|DV550707
EST:     CAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAA                         ATCATCTTTGCTTGAACGTATGCCTGCATTGGATGAAGCAAATTATTTGGT
genomic: CAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCGATAAAgtgagtggca ... gtatgcgcagATCATCTTTGCTTGAACGTATGCCTGCATTGGATGAAGCAAATTATTTGGT