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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtgctaaatattttcaagtaaatattttatgccaattccactacatagatgctttaatgttattgcttgccatttcccccctttagGATGTTTCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGATGACAATTTAAGTCCAACCCAGAACACATACAATTCCAACATACGCAATA

Basic information

species Glycine max
transcript GLYMA10G37690.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G37690.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os11g37130.1 (Oryza sativa), 3'ss of exon 3
gttggtgctaaatattttcaagtaaatattttatgccaattccactacatagatgctttaatgttattgcttgccatttcccccctttagGATGTTTCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGATGACAATTTAAGTCCAACCCAGAACACATACAATTCCAAC-ATACGCAATA---
              ||     || | |  | |      |||||   | | | |||   ||| ||  |  |||    ||| || | | ||||||||||||||||| || | ||| ||||||||||| || ||||| |||||||| | ||     || | | |  |   | |     || || ||    ||||   
-------------gttggtttgtgacttgtctgatgtgattccttgatacatatg---taacgt-gtctctt----ttttccgcatatagGATGTTTCAAGGGAGTTCAGGAGCACTCTTGAACGAGAAATTGGACTTGATGA-AGTTC---CCCCATCAATGAACTACAGGCCCCCGACCATGAATAATAGTC

upper sequence: GLYMA10G37690.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0050g00800.t01 (Vitis vinifera), 3'ss of exon 3
gttggtgctaaatattttcaagtaaa--tattttatgccaattccactacatagatgctttaatgttattgctt--gccatttccccccttt--agGATGTTTCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGATGACAATTTAAGTCCAACCCAGAACACATACAATTCCAACATACGCAATA
|| | | || |  | ||| |  | ||  ||  || | |  |   |  |  |   |||| |  ||| || |  ||   ||||||  |||  ||  |||| ||||||| |||||||||||| || ||||||  |||||||||| ||||||| | || |||| |||  ||  | |||||||   |||  | |   ||  
gtagatacttacaactttgagtttaacctacattgttctcaccacctttgaggaatgcct-gatgctactagttctaccatttttccctcttgtagGAAGTTTCAAAGGAATTTAAGAGCACCCTTGAAAAGGAGATTGGTTTTGATGAGATTTCAAGTTCAATACAAGATACATACAGGCCCAGAACAACTAACC
















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|192321000|gb|FK013502.1|FK013502
EST:     ATCTGGGAAAAACATTGCGTACATTTCAACCCACCATTAAAGAGCTTCAG                         GATGTTTCAAAGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTACATTTCAACCCACCATTAAAGAGCTTCAGgttggtgcta ... ccccctttagGATGTTTCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGAT
EST: gi|151401377|gb|EV271191.1|EV271191
EST:     ATCTGGGAAAAACATTGCGTACATTTCAACCCACCATTAAAGAGCTTCAG                         GATGTTTCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTACATTTCAACCCACCATTAAAGAGCTTCAGgttggtgcta ... ccccctttagGATGTTTCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGAT
EST: gi|192321001|gb|FK013503.1|FK013503
EST:     ATCTGGGAAAAACATTGCGTACATTTCAACCCACCATTAAAGAGCTTCAG                         GATGTTTCAAAGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTACATTTCAACCCACCATTAAAGAGCTTCAGgttggtgcta ... ccccctttagGATGTTTCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGAT
EST: gi|13482016|gb|BG511359.1|BG511359
EST:     ATCTGGGAAAAACATTGCGTACATTTCAACCCACCATTAAAGAGCTTCAG                         GATGTTNCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTACATTTCAACCCACCATTAAAGAGCTTCAGgttggtgcta ... ccccctttagGATGTTTCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGAT
EST: gi|151404534|gb|EV274348.1|EV274348
EST:     ATCTGGGAAAAACATTGCGTACATTTCAACCCACCATTAAAGAGCTTCAG                         GATGTTTCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGAT
genomic: ATCTGGGAAAAACATTGCGTACATTTCAACCCACCATTAAAGAGCTTCAGgttggtgcta ... ccccctttagGATGTTTCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaattccactacatagatgctttaatgttattgcttgccatttcccccctttagGATGTTTCAAGGGAATTTAAGAGTACTCTTGAACGGGAGATTGGTCTTGATGACAATTTAAGTCCAACCCAGAACACATACAATTCCAACATACGCAATA
                    ctttaat  putative branch site (score: 4)
                               ttgcttgccatttccc  putative PPT
                     tttaatgttatt  TA-rich tract