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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttatattctcattagctgcagtttccattaataaatggtcttccttaacctatcctcttgtttctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAGTAGGAGGGATGATTTAGAGTCACTGGCATACACCCTTATTTTCCTGATA

Basic information

species Zea mays
transcript GRMZM2G037923_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G037923_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os07g07560.1 (Oryza sativa), 3'ss of exon 9
gttggttatattctcat--tagctgcagttt-ccattaata-aatggtcttccttaacctatcctcttgtttctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAGTAGGAGGGATGATTTAGAGTCACTGGCATACACCCTTATTTTCCTGATA
|||||  ||||||||    || ||||  | |  |  | ||| | || | ||   | |  | |    | |||| ||||  |||||| |||||||||||||| ||||||||||| ||||| || || |||||||||||||||||||||||||||||| |||| ||||||||||| || || |||
gttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgtttttttt--cagGGGTACAATTAGATATGCCAGTGTCCATGCCCATTTAGGCCGTACTGGTAGTAGGAGGGATGATTTAGAGTCATTGGCGTACACCCTTATATTTCTAATA

upper sequence: GRMZM2G037923_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA16G04580.1 (Glycine max), 3'ss of exon 9
gttggttatattctcattagctgcagtttccattaataaatggtcttccttaacctatcctcttgtttctttttg--cagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAGTAGGAGGGATGATTTAGAGTCACTGGCATACACCCTTATTTTCCTGATA
||| || ||||| | || |  ||    |       |||  | |  ||     |   ||  |  | |  |||||||  |||||||||||| || ||||| ||||| ||||| ||||| ||  | ||||| ||| | ||||||||  | ||||||||||||||||| ||  | || || |||
gtttgt-atatt-ttatgacttgtttgtcatggctatattttgcttttacatattgatgataatatgcctttttgtgcagGGGAACAATAAGGTATGCTAGTGTACATGCACATTTAGGTAGGACTGGAAGTCGAAGGGATGACCTTGAGTCACTGGCATACACACTAGTATTTCTCATA

upper sequence: GRMZM2G037923_T02 (Zea mays), 3'ss of exon 9
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 9
gttggttatattctcattagctgcagtttccattaataaatggtct--tccttaacctatcctcttgtt-tctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAGTAGGAGGGATGATTTAGAGTCACTGGCATACACCCTTATTTTCCTGATA
||| ||    ||||   |      |      |  || ||||| | |   | |||   |||  |  | |  |||||| |||||||||||||  | ||||| ||||| ||||| ||||| || || || || ||||| ||||||||| | |||||||| || |||||  | || || || || 
gtttgtggatttctggatgttcataaaaaaaaa-aaaaaatgctttgacctttataatatattaatctcctcttttggcagGGGAACAATACGGTATGCAAGTGTGCATGCACATTTAGGACGGACAGGAAGTAGAAGGGATGATCTCGAGTCACTAGCTTACACATTAATATTTCTCATT

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|211490682|gb|FL280129.1|FL280129
EST:     GAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAG                         GGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAG
genomic: GAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAGgttggttata ... ctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtttccattaataaatggtcttccttaacctatcctcttgtttctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAGTAGGAGGGATGATTTAGAGTCACTGGCATACACCCTTATTTTCCTGATA
                        ccttaac  putative branch site (score: 3)
                    tcttccttaacctatc  CT-rich tract
        attaataaat  TA-rich tract