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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcgttccttgagatgtctgctttcgaaatatttacatctgcttttcttttccgagaacatgttcttcaagttaaataaaaaaaggaaagcactgtagaccaaagaatgttattgcctgtgcgtttaattgtctgctgagtgctgatgtcttattccaagtactgtggtgttgagtggatttttaactcttgctagGTGAACGTTCGGAGTTTTGGACACAGAAATCCTCTGGAAGAGTACAAGATCGATGGCTGCCGCTTCTTCATCTCAATGTTGAGCGCCACACGACGTCTCA

Basic information

species Zea mays
transcript GRMZM2G036497_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G036497_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os11g08980.1 (Oryza sativa), 3'ss of exon 29
gtaagtcgttccttgagatgtctgctttcgaaatatttacatctgcttttcttttccgagaacatgttcttcaagttaaataaaaaaaggaaagcactgtagaccaaagaatgttattgcctgtgcgtttaattgtctgctgagt-gctgatgtcttattccaagtactgtggtgttgagtggatttttaactcttgctagGTGAACGTTCGGAGTTTTGGACACAGAAATCCTCTGGAAGAGTACAAGATCGATGGCTGCCGCTTCTTCATCTCAATGTTGAGCGCCACACGACGTCTCA
                                                                                                                |||      ||| | |||||   ||| |||| |  ||  | || | |  ||  |  | ||||||||| |    ||||  || || ||||||||| || ||||| |||||||| ||||| ||| | ||||| |||||||| ||||| || || ||||||||||| |||||| | ||||||||  |  | |
-------------------------------------------------------------------------------------------------------------gtagttccaatatgttcctttaa--atcttctgatttactcttctcctgtcacagct-ttctggtgttgattttgatttt--ctttttctagGTGAATGTGCGGAGCTTTGGACATAGAAACCCTTTAGAAGAATACAAGATTGATGGTTGTCGGTTCTTCATCTCGATGTTGGGTGCCACACGGAGATTGA

upper sequence: GRMZM2G036497_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA06G12320.1 (Glycine max), 3'ss of exon 28
gtaagtcgttccttgagatgtctgctttcgaaatatttacatctgcttttcttttccgagaacatgttcttcaagttaaataaaaaaaggaaagcactgtagaccaaagaatgttattgcctgtgcgtttaattgtctgctgagtgctgatgtcttattccaagtactgtggtgttgagtggatt---tttaactcttgctagGTGAACGTTCGGAGTTTTGGACACAGAAATCCTCTGGAAGAGTACAAGATCGATGGCTGCCGCTTCTTCATCTCAATGTTGAGCGCCACACGACGTCTCA
                                                                                                                                 ||| | |    |  |  |  |||| |  ||     |    ||      |  || ||   |   | |  ||  |||||||| || |||| ||||| || ||||||||||| |||||||| || || ||||| || || || || ||||||||| |||| || ||  || |  | |
--------------------------------------------------------------------------------------------------------------------------------gtaaattttccttttgctcccatgtatctttttggttctcttgacaacaaaaggcttatatcagagttgtggcagGTGAACATTAGGAGCTTTGGCCATAGAAATCCTCTTGAAGAGTATAAAATTGATGGTTGTCGATTTTTTATCTCAATGCTGAGTGCAACTAGAAGGTTAA
















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|211009300|gb|FL189699.1|FL189699
EST:     ATACATTATGGAAAGACCATTTGGTAAACATGAACAAGCTTAGTTCTGCT                         GTGAACGTTCGGAGTTTTGGACACAGAAATCCTCTGGAAGAGTACAAGATC
genomic: ATACATTATGGAAAGACCATTTGGTAAACATGAACAAGCTTAGTTCTGCTgtaagtcgtt ... ctcttgctagGTGAACGTTCGGAGTTTTGGACACAGAAATCCTCTGGAAGAGTACAAGATC
EST: gi|18661436|gb|BM501396.1|BM501396
EST:     ATACATTATGGAAAGACCATTTGGTAAACATGAACAAGCTTAGTTCTGCT                         GTGAACGTTCGGAGTTTTGGACACAGAAATCCTCTGGAAGAGTACAAGATC
genomic: ATACATTATGGAAAGACCATTTGGTAAACATGAACAAGCTTAGTTCTGCTgtaagtcgtt ... ctcttgctagGTGAACGTTCGGAGTTTTGGACACAGAAATCCTCTGGAAGAGTACAAGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgatgtcttattccaagtactgtggtgttgagtggatttttaactcttgctagGTGAACGTTCGGAGTTTTGGACACAGAAATCCTCTGGAAGAGTACAAGATCGATGGCTGCCGCTTCTTCATCTCAATGTTGAGCGCCACACGACGTCTCA
                                       ttttaac  putative branch site (score: 2)
                                             ctcttgct  CT-rich tract
                                     atttttaact  TA-rich tract