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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctgttagtcttgtggatcaggtatcataaattgaacctttttaaatatattttttttgtagcttcagttgagctttgaccctatatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC

Basic information

species Glycine max
transcript GLYMA08G20830.4
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 7
-gctgttagtcttgtggatcaggtatcataaattgaacctttttaaatatattttttttgtagcttcagttgagctttgaccctatatattattat-tgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC
| | |||| | | || | | | | ||| | | | || | || | | | | ||| |||| | ||||||||| |||||||| || || || |||||||| || |||||||||||||| ||||| || |||||||| || ||||| ||||||||| || ||||||||||
aaaactcaaa--tgtgaaatatgtgtaacttttgtggatggagggagtatcatctatctgcccaatgtatttatcgatattattttattgtattgtgtgcagAGGTGATAACATCTGCTGAGTTCCACCCTACTCACTGTAATACATTGGCTTATAGTAGCTCAAAGGGCTCCATTCGACTTGTTGACCTGAGGCAGTCAGC

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 7
---gctgttagtcttgtggatcaggtatcataaattgaacctttttaaatatattttttttgtagcttcagttgagctttgaccctatatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC
|| | | | || | || ||| | || | ||| | | | | | | ||| | |||| || | || || | || |||| ||||||| || |||| || || || ||||| || |||||||||||| |||| |||||||||||||||||||| || || || |||| |||| || |||||
attattgatgtttaagatgacctggaatctgatctttacacttactgtaattcatgtcctggtaatat--gttgtgcat-gatgtaatttgttgatatttcagAGGTCATTACATGTGCGGAGTTCCACCCAACTCATTGTAATACACTGGCCTATAGCAGTTCAAAGGGTTCTATCCGACTCATTGATCTGCGACAATCAGC

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 7
gctgttagtcttgtggatcaggtatcataaattgaacctttttaaatatattttttttgtagctt-cagttgagctttgaccctatatattattat-tgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC
||| | || | | | | |||| | ||| || | | | ||| | | | | ||| || | | | ||| | ||||||||| |||||||| || ||||| || ||||| ||||| ||||||||||| ||||| || || ||||| || ||||| |||||||| ||||||| |||||
gctttc--ctttattgtttttatcacatatccgttaagtttctactggtggcatctctgttgttagctgctgatagttattctttggttctatgacatgcagAGGTGATAACATCTGCTGAATTCCATCCTACTCATTGCAATACATTGGCGTATAGTAGCTCTAAGGGCTCCATTCGACTTGTTGATCTGCGGCAATCAGC

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 7
---gctgttagtcttgtggatcaggtatcataaattgaaccttt-ttaaatatattttttttgt-agcttcagttgagctttgaccctatatattattat-tgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC
|| | | | |||| ||| | |||| | | | || ||| |||| |||| | | | |||| || | | ||| | ||||||||| |||||||| || ||||| || ||||| || || ||||| ||||||||||| || || ||||| || ||||| |||||||| |||| || |||||
gctttcctttattgtttttatcacatattct---ttgagtttctactggtggcatctttgttgttagctactgat-agctatggttttgttc--tatcacatgcagAGGTGATAACATCTGCTGAATTCCATCCTACCCACTGCAATACGTTGGCATATAGTAGCTCTAAGGGATCCATTCGACTTGTTGATCTGCGCCAATCAGC

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 8
gctgttagtcttgtggatcaggtatcata-aattg----aacctttttaaatatattttttttgtagcttcagttgagctttgaccctatatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC
| | | ||| || | | || || |||| || || | ||| || |||| | || || || | | | ||| |||| ||||||| || |||| || || || || || | |||||||||||| |||| ||||| |||||||||||||| || || ||| |||| |||| || |||||
--tttgaatctggtaggctcattttcctataattattacaagtcttattgctattcttgctttgcgtatgcacttcctgatttgctc---acattcatatttcagAGGTGATTACATGTGCGGAGTTCCATCCATCCCATTGTAATACACTGGCCTATAGTAGTTCAAAGGGTTCTATCCGACTTATTGATCTGCGTCAATCAGC

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 7
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 9
--------------gctgttagtcttgtggatcaggta-tcataaattgaacctttttaa-atatattttttttgtagcttcagttgagctt-tgaccctatatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC
|||||| || | | || || || | | ||| |||| || | || | | || | || || |||| ||| | || |||||||||||| ||||||||||||||||| ||||| ||||| |||| || || ||||||||||| || ||||||||||| || |||| |||| ||||||||
gtaagccttggtctactgttatctcagtctaatatgttctcttatacggtacccatttatcatgcaattggat-gcgatatccttcgaatttacgaccatat---tcgttcatgcagAGGTTATCACATCAGCAGAATTTCATCCTACCCATTGCAATATGTTAGCCTATAGCAGTTCGAAAGGTTCAATTCGCCTGATTGATCTGCGCCAGTCAGC

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 7
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 7
---------------------------------gctgt-tagtcttg----tggatcaggtatcataaattgaacctttttaaatatattttttttgtagcttca------gttgagctttgacccta----tatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC
||| | ||||| || ||| | ||| || ||| | ||| | |||||| | || | || |||| | | | || || | |||||||||||| |||||||| || ||||| |||| |||||||||| | |||||||| |||||||| || || |||||| | |||| |||| || |||||
gtatgctacttctcctattttgttagatgttactttgtatggtcttaccattgattcatatgtcaacaacctccttacttttattatctatttttttcacgtttactgcttgtcgagcatgcttctaaatgctacatggtctgtgcagAGGTTATTACATCAGCTGAGTTTCATCCTATCCATTGTAATATGCTCGCATATAGTAGTTCAAAAGGCTCCATTCGTTTGATTGATATGCGTCAATCAGC

upper sequence: GLYMA08G20830.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 7
gctgttagtcttgtggatcaggtatcataaattgaacctttttaaatatattttttttgtagcttcagttgagctttgaccctatat----attattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC
| || || ||| |||| || | | || || | | | | | | | ||| |||||| ||| | ||||| ||| || |||||||||| ||||||||||| || ||||||||||| |||||||| | || |||||||| |||||||| || ||||| || ||| ||| ||||| ||||||||
aatatt--tcctgtctatcattcatttgttctgggtgctattctactgtttaatgatgctgcattc--ttgagcattggacttatattccaattcttcttgcagAGGTGATAACATCAGCGGAGTTTCACCCTACCCATTGTAACATGTTAGCATATAGTAGTTCAAAAGGCTCAATCCGCCTTAATGATTTGCGACAGTCAGC

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|193650550|gb|FK599845.1|FK599845
EST:     GCAAATATGGAGGATCTGACCG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: GCAAATATGGAGGATCTGACCGgtaagttttc ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|193636366|gb|FK584039.1|FK584039
EST:     AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACCG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACCGgtaagttttc ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|14990248|gb|BI315921.1|BI315921
EST:     TTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACCG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: TTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACCGgtaagttttc ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|7796415|gb|AW781812.1|AW781812
EST:     AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACCG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: AAGTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACCGgtaagttttc ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|208216614|gb|GE012546.1|GE012546
EST:     AGTTTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACCG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: AG-TTTTAATATTGTTGATGTAAAGCCTGCAAATATGGAGGATCTGACCGgtaagttttc ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
EST: gi|193687174|gb|FK630415.1|FK630415
EST:     TAAAGCCAGCAAATATGGAGGATCTGACCG                         AGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT
genomic: TAAAGCCTGCAAATATGGAGGATCTGACCGgtaagttttc ... attattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatattttttttgtagcttcagttgagctttgaccctatatattattattgcagAGGTTATAACATCAGCAGAATTTCACCCTACACATTGTAATACATTGGCATATAGCAGTTCAAAGGGTTCAATTCGTCTTGTTGACTTGCGGCAGTCAGC
                            ctttgac  putative branch site (score: 4)
 tatatattattattgc  TA-rich tract