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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttacccccaatttccatgtaacttccaactagttttttttttgaaacaaaaacttccaagtagtttgtgtgaattaattggtttcaatgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATTTCATCCTCTCAGTTTTTTGGTGATCAGGCCAGTTTCGAAAAGGACACTC

Basic information

species Zea mays
transcript GRMZM2G134045_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os10g42420.1 (Oryza sativa), 3'ss of exon 4
-tttttacccccaatttccatgtaacttccaactagt-tttttttttgaaacaaaaacttccaagtagtttgtgtgaattaattggtttcaatgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATTTCATCCTCTCAGTTTTTTGGTGATCAGGCCAGTTTCGAAAAGGACACTC
 ||  | |    |||    |  |           ||| ||| |||    | |   |||||||||| ||| |||   || ||||   || || | || | |||||||| ||||| ||||||||||||||||| || || |||||||| ||||||||||| |||||||||||||| || ||||||||||| ||||||||  |||
gttcctgctggaaataagaagctttggcggtttcagtatttgtttgctcagcgccaacttccaagaagtctgtt--aactaatcaattgcagtattctccagATTGAAGAAAGTAGTGAAGCAAGACAGAAGTTTTCAAATGCAAAGTCAATTTCATCTTCTCAGTTTTTTGGAGACCAGGCCAGTTTTGAAAAGGAGGCTC
















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|87154151|gb|DY398940.1|DY398940
EST:     TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
genomic: TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
EST: gi|50329244|gb|CO524370.1|CO524370
EST:     TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
genomic: TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
EST: gi|78110556|gb|DV528966.1|DV528966
EST:     TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
genomic: TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
EST: gi|26455703|gb|CA827286.1|CA827286
EST:     TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
genomic: TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
EST: gi|86467876|gb|DY234246.1|DY234246
EST:     TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
genomic: TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
EST: gi|87155179|gb|DY399968.1|DY399968
EST:     TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
genomic: TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
EST: gi|22545199|gb|BU097558.1|BU097558
EST:     TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
genomic: TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
EST: gi|89759290|gb|DY688159.1|DY688159
EST:     TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
genomic: TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
EST: gi|78027266|gb|DV495653.1|DV495653
EST:     AGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
genomic: AGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
EST: gi|78082818|gb|DV511211.1|DV511211
EST:     TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
genomic: TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT
EST: gi|32909005|gb|CF013817.1|CF013817
EST:     TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGC
genomic: TGGACAGTGGATATCACAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGC
EST: gi|211356763|gb|FL443096.1|FL443096
EST:     CAAAAAATCTACATCCAGTTCATCCAAAGTGCAG                         ATTGAGGAAAGCAGTGAAGCAAGMCAGAAATTCTCGAATGCAAAATCAATT
genomic: CAAAAAATCTACATCCAGTTCATCCAAAGTGCAGgtaactgttt ... tgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaacaaaaacttccaagtagtttgtgtgaattaattggtttcaatgttgttcagATTGAGGAAAGCAGTGAAGCAAGACAGAAATTCTCGAATGCAAAATCAATTTCATCCTCTCAGTTTTTTGGTGATCAGGCCAGTTTCGAAAAGGACACTC
                             aattaat  putative branch site (score: 3)
                           tgaattaatt  TA-rich tract