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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