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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgatttctttttcctctctctctctctctctagagaattattggatttcaattatggaagaaataactaattttgttttctccctccagAACAATGATTTGAATCCGATTTGGAATGAACACTTTGAATTTGTTGTTGAAGATGTGTCCACTCAGCACGTAACTGTTAAAGTTTATGATTCTGAGGGTT

Basic information

species Glycine max
transcript GLYMA17G11800.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G11800.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os04g55220.1 (Oryza sativa), 3'ss of exon 9
gtgagt--tgatttctttttcctctctctctctctctctagagaattattggatttcaattatggaagaaataactaattttgt--tttctccctccagAACAATGATTTGAATCCGATTTGGAATGAACACTTTGAATTTGTTGTTGAAGATGTGTCCACTCAGCACGTAACTGTTAAAGTTTATGATTCTGAGGGTT
|| |||      | || | | | || | | | |    | | |||  | |    |||  | |    |   |  | ||  || |||  ||      | |||||||| || ||||| || || ||||||||||||||||| ||| ||||||||||||     ||||||   || || || ||  ||||||||  ||| ||| 
gtaagtatcagctactctattccctgtttatgtgctccaatagatatgtatattttttaatgcatactga-cagctgtttatgtgcttcaaatttacagAACAACGACTTGAACCCTATCTGGAATGAACACTTTGAGTTTATTGTTGAAGATGCAGATACTCAGACTGTGACAGTGAAGATTTATGATGATGATGGTA

upper sequence: GLYMA17G11800.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G071163_T01 (Zea mays), 3'ss of exon 9
gtgagttgatttctttttcctctctctctctctctctagagaattattggatttcaattatggaagaaataactaattttgttttctccctccagAACAATGATTTGAATCCGATTTGGAATGAACACTTTGAATTTGTTGTTGAAGATGTGTCCACTCAGCACGTAACTGTTAAAGTTTATGATTCTGAGGGTT
|| |||| | ||  || ||      || ||| |      ||| |||||    |  ||                | |||    |   |   | |||||||| ||| |||| || || ||||||||||||||||| |||  |||||||||||     ||||||   ||||| || ||  ||||||||  ||| ||  
gtaagtttagttgcttatctgtgagctgtctttt-----agagttatt----tctaaccgc-----------tttattcaactactt---tacagAACAACGATCTGAACCCTATCTGGAATGAACACTTTGAGTTTACTGTTGAAGATGCTGATACTCAGAGTGTAACCGTGAAGATTTATGATGATGATGGCA

upper sequence: GLYMA17G11800.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G05500.1 (Arabidopsis thaliana), 3'ss of exon 9
gtgagttgatttctttttcctctctctctctctctctagagaattattggatttcaattatggaagaaataactaattt-tgttttctccctccagAACAATGATTTGAATCCGATTTGGAATGAACACTTTGAATTTGTTGTTGAAGATGTGTCCACTCAGCACGTAACTGTTAAAGTTTATGATTCTGAGGGTT
                              ||  |||| |   |  ||   |   ||   |   ||||  | || |||| | |||  || |  |||||||||||  ||||||| || |||||||| || |||||||||||||| ||||| | ||| ||||| ||  ||   || | | | ||||||   |||||| 
----------------------gtaagtagtccatcta-atcctctttttgtgctaaacctaccagaatgatctgatttatatttattctcatcagAACAATGACCTGAATCCCATCTGGAATGAGCATTTTGAATTTGTTGTGGAAGACGCGTCAACTCAACATTTAGTGGTCAGAATATATGATGACGAGGGTG

upper sequence: GLYMA17G11800.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv11s0118g00230.t01 (Vitis vinifera), 3'ss of exon 8
gtgagttgatttctttttcctctctctctctctctctagagaattattggatttcaattatggaagaaataac-taattttgtttt-ctccctccagAACAATGATTTGAATCCGATTTGGAATGAACACTTTGAATTTGTTGTTGAAGATGTGTCCACTCAGCACGTAACTGTTAAAGTTTATGATTCTGAGGGTT
             |  |||      | |  | ||| |  |||| | |  ||||     | || | |   |||  |||  |||| ||  | ||| ||||||||  | ||||||||  | |||||||||||||| |||||| ||||||||||||  |||||||| ||| |    || ||| | || |||  ||||||  
------------gtaattcactctgcaccttttcttttaagaactttctgattagctctttgcatgttttaaaataaccttgtattgtttccttcagAACAACCAGTTGAATCCAGTCTGGAATGAACACTTCGAATTTATTGTTGAAGATGCATCCACTCAACACTTGGTGGTAAAAATATACGATAATGAGGGGC

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|193532907|gb|FK488513.1|FK488513
EST:     TTGTATACATACGGCCTTTACGCGAAAGAATGAAGAAAAGCAAAACAATT                         AACAATGATTTGAATCCGATTTGGAATGAACACTTTGAATTTGTTGTT
genomic: TTGTATACATACGGCCTTTACGCGAAAGAATGAAGAAAAGCAAAACAATTgtgagttgat ... ctccctccagAACAATGATTTGAATCCGATTTGGAATGAACACTTTGAATTTGTTGTT
EST: gi|11412226|gb|BF424237.1|BF424237
EST:     GAATGAAGAAAAGCAAAACAATT                         AACAATGATTTGAATCCGATTTGGAATGAACACTTTGAATTTGTTGTTGAA
genomic: GAATGAAGAAAAGCAAAACAATTgtgagttgat ... ctccctccagAACAATGATTTGAATCCGATTTGGAATGAACACTTTGAATTTGTTGTTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattattggatttcaattatggaagaaataactaattttgttttctccctccagAACAATGATTTGAATCCGATTTGGAATGAACACTTTGAATTTGTTGTTGAAGATGTGTCCACTCAGCACGTAACTGTTAAAGTTTATGATTCTGAGGGTT
                              aactaat  putative branch site (score: 2)
                                ctaattttgttttctc  CT-rich tract
                       aagaaataactaattt  TA-rich tract