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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtcatattctcatagcagcagttttttttaataaatggcgttctgtaacctatcctcttggtttctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAGTAGGAGGGATGATTTAGAGTCACTGGCATACACCCTTATTTTCCTGATT

Basic information

species Zea mays
transcript GRMZM2G164265_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G164265_T03 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os07g07560.1 (Oryza sativa), 3'ss of exon 9
gttggtcatattctcatagcagcagtttttt--ttaataaatggcgttctgtaacctatcctcttggtttctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAGTAGGAGGGATGATTTAGAGTCACTGGCATACACCCTTATTTTCCTGATT
|||||  ||||||||   | | | | | | |   |   | || | | | | ||     |  | |     | ||||| |||||| |||||||||||||| ||||||||||| ||||| || || |||||||||||||||||||||||||||||| |||| ||||||||||| || || || 
gttggcaatattctctctgtacctgctatctgtctctcatatagtgctttttacttatttttatcttcgttttttttcagGGGTACAATTAGATATGCCAGTGTCCATGCCCATTTAGGCCGTACTGGTAGTAGGAGGGATGATTTAGAGTCATTGGCGTACACCCTTATATTTCTAATA

upper sequence: GRMZM2G164265_T03 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA16G04580.1 (Glycine max), 3'ss of exon 9
gttggtcatattctcatagcagcagttttttttaataaatggcgttctgtaacctatcctcttg-gtttctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAGTAGGAGGGATGATTTAGAGTCACTGGCATACACCCTTATTTTCCTGATT
||| || ||||| |   |   |    |  |    |||  | || ||     |   ||  |  |  |  | ||| |||||||||||||| || ||||| ||||| ||||| ||||| ||  | ||||| ||| | ||||||||  | ||||||||||||||||| ||  | || || || 
gtttgt-atattttatgacttgtttgtcatggctatattttgcttttacatattgatgataatatgcctttttgtgcagGGGAACAATAAGGTATGCTAGTGTACATGCACATTTAGGTAGGACTGGAAGTCGAAGGGATGACCTTGAGTCACTGGCATACACACTAGTATTTCTCATA

upper sequence: GRMZM2G164265_T03 (Zea mays), 3'ss of exon 9
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 3'ss of exon 9
gttggtcatattctcatagcagcagttttttttaataaatggcgt--tctgtaacctatcctcttggtttctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAGTAGGAGGGATGATTTAGAGTCACTGGCATACACCCTTATTTTCCTGATT
||| ||    ||||    |              || |||||   |   || ||   |||  |  |    |||||| |||||||||||||  | ||||| ||||| ||||| ||||| || || || || ||||| ||||||||| | |||||||| || |||||  | || || || |||
gtttgtggatttctggatgttcataaaaaaaaaaaaaaatgctttgacctttataatatattaatctcctcttttggcagGGGAACAATACGGTATGCAAGTGTGCATGCACATTTAGGACGGACAGGAAGTAGAAGGGATGATCTCGAGTCACTAGCTTACACATTAATATTTCTCATT

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|67020152|gb|CO448901.1|CO448901
EST:     GAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAG                         GGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAG
genomic: GAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAGgttggtcata ... ctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAG
EST: gi|7145135|gb|AW506616.1|AW506616
EST:     GAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAG                         GGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAG
genomic: GAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAGgttggtcata ... ctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAG
EST: gi|71430775|gb|DR811825.1|DR811825
EST:     GAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAG                         GGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAG
genomic: GAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAGgttggtcata ... ctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAG
EST: gi|67043197|gb|CO469452.1|CO469452
EST:     GAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAG                         GGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAG
genomic: GAGAATAATGGTCATCATGTTGATTATGATCAACGGCCTGATATCTTTAGgttggtcata ... ctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttttttttaataaatggcgttctgtaacctatcctcttggtttctttttgcagGGGAACAATTAGATATGCGAGTGTCCATGCTCATTTGGGGCGCACTGGTAGTAGGAGGGATGATTTAGAGTCACTGGCATACACCCTTATTTTCCTGATT
                       ctgtaac  putative branch site (score: 3)
                             cctatcctcttggttt  CT-rich tract
     tttttaataaat  TA-rich tract