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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctgtgtggatttattgatatattcgttcgcattgcgattggttaaatttctcctccgcgttgaattcttgcgcgtagTTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAG

Basic information

species Zea mays
transcript GRMZM2G171406_T06
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G171406_T06 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g43594.2 (Oryza sativa), 3'ss of exon 3
gtaagctgtgtggatttattgatatattcgt--tcgcatt-gcgattggttaa--------------------atttctcctccgcgttgaattcttgcgcgtagTTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAG
||||| |  | ||| || |||| ||  || |     ||||  |||  ||||||                     ||||| |||  ||||||||||| ||| | |||||||||||| || ||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
gtaagttcagaggagttcttgagattatcctaacaacatttacgagcggttaatttagccttaaccatccgtggtttcttctctccgttgaattctcgcgtgcagTTGAGCTGGACAAACCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTCAAG

upper sequence: GRMZM2G171406_T06 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g40140.1 (Oryza sativa), 3'ss of exon 2
gtaagctgtgtggatttattga-------tatattcgttcgcatt-gcgattggttaaatttctcctccgcgttgaattcttgcgcgtagTTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAG
||||| |    ||| || || |       || | |  ||  ||||  | | ||||||   ||  |  |   ||| |||| |   | ||||||||||| || ||||| |||||||||||||||||||||||||||||||||||||||||||| ||||| |||
gtaagttcataggactttttaaaaatatctaaagttattaacatttacaaatggttagccttaactcc---gttaaattttcctgtgtagTTGAGCTAGATAAGCCATGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTTGCATTTAAG
















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|71429669|gb|DR810719.1|DR810719
EST:     AGGTAGCGGAACGCTGATCTCGGTTTACCCCGAGGAGCTCACCTTCTTGT                         TTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCG
genomic: AGGTAGCGGAACGCTGATCTCGGTTTACCCCGAGGAGCTCACCTTCTTGTgtaagctgtg ... ttgcgcgtagTTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCG
EST: gi|93012917|gb|EB638437.1|EB638437
EST:     AGGTAGCGGAACGCTGATCTCGGTTTACCCCGAGGAGCTCACCTTCTTGT                         TTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCG
genomic: AGGTAGCGGAACGCTGATCTCGGTTTACCCCGAGGAGCTCACCTTCTTGTgtaagctgtg ... ttgcgcgtagTTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCG
EST: gi|89251407|gb|DY623193.1|DY623193
EST:     AGGTAGCGGAACGCTGATCTCGGTTTACCCCGAGGAGCTCACCTTCTTGT                         TTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCG
genomic: AGGTAGCGGAACGCTGATCTCGGTTTACCCCGAGGAGCTCACCTTCTTGTgtaagctgtg ... ttgcgcgtagTTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgttcgcattgcgattggttaaatttctcctccgcgttgaattcttgcgcgtagTTGAGCTGGAGAAGCCGTGCTATTGCAATCTCAAGGTGGTGAACAACAGCGAGCATCATGTCGCATTCAAG
                                          ttcttgc  CT-rich tract
                   ttaaatttct  TA-rich tract