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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggataactaaatcttgttttgttttcattctctctacattgtgatctatgtacttgcaattcctggtgttttaccagtgagaattgtttttttctttgttttactcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGCATGCTCACTTGCCGGTCACTGGGGTCTAGGGAAGCTTATTGCTTTATAT

Basic information

species Glycine max
transcript GLYMA20G38720.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38720.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g19740.1 (Oryza sativa), 3'ss of exon 3
gtaggataactaaatcttgttttgttttcattctctctacattgtgatctatgtacttgcaattcctggtgttttaccagtgagaattgtttttttctttgttttactcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGCATGCTCACTTGCCGGTCACTGGGGTCTAGGGAAGCTTATTGCTTTATAT
      ||| | | || | | |||   | || |     ||| |  |  |  ||     | || | ||  |    ||   ||                     || |   |  ||| ||||||||| | || ||||| || |||||||| ||  | |||||||| |||| ||| ||||| |||||||||||||| ||||| || ||||| || || 
-----gtaagttattcctttcttgacctaatgc-----acaatagggacagtg-----gtaagttctaatacaatattggta-------------------cttgatggtcttagGTATGTTATACTTGGGGATGGCTGCCAAATGGAAGGTGTGTCAAATGAGGCATCCTCCCTTGCTGGTCACTGGGGTCTCGGGAAACTAATTGCCTTCTAC

upper sequence: GLYMA20G38720.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G033208_T01 (Zea mays), 3'ss of exon 3
gtaggataactaa--atcttgttttgttttcattctctctacattgtgatctatgtacttgcaattcctggtgttttaccagtgagaattgtttttttctttgttttactcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGCATGCTCACTTGCCGGTCACTGGGGTCTAGGGAAGCTTATTGCTTTATAT
|||  |   ||||  |        ||       || || |  |||    |||   | |||  | |     ||||   || |||     |    | |||| | | |   |   |  || || ||||| ||||| ||||| || ||||||||||| ||| | |||||||| |||||  | || || ||||||||||| || ||||| |||||||| || 
gtaatacttctaataacgccaacgtgcagcgtctcgcttt-tattacagtct---tgcttttagtct---gtgtggcac-agttttggtaacatgtttcgtggat---cctgtacagGTACGTTATTTTGGGAGATGGCTGCCAAATGGAGGGTATTGCTAATGAAGCTTGCTCCTTGGCTGGACACTGGGGTCTTGGCAAGCTGATTGCTTTCTAC

upper sequence: GLYMA20G38720.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G45290.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaggataactaaatcttgttttgttttcattctctctacattgtgatctatgtacttgcaattcctggtgttttaccagtgagaattgtttttttctttgttttactcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGCATGCTCACTTGCCGGTCACTGGGGTCTAGGGAAGCTTATTGCTTTATAT
                  ||    |||| | ||  || ||      |  | | |  ||    ||| |||  || |     ||  || ||  |    |||||  |||        | |||   ||  | || ||||||||||| ||||| || |||||||||||||  ||||| || || ||||||||||| || || ||||| || ||||| || 
------------------gtaagattttgactccttcaacggc---acttttattgttatctttcttgg-attgtgatgttgtaaactgact---gctttggatta--------gGTATTCGATTCTTGGAGATGGTTGTCAGATGGAAGGGATTTCAAATGAAGTTTGCTCTCTAGCTGGTCACTGGGGACTTGGAAAGCTAATCGCTTTCTAC

upper sequence: GLYMA20G38720.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G60750.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaggataactaaatcttgttttgttttcattctctctacattgtgatctatgtacttgcaattcctggtgttttaccagtgagaattgtttttttctttgttttactcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGCATGCTCACTTGCCGGTCACTGGGGTCTAGGGAAGCTTATTGCTTTATAT
                     |  | |  ||   |  ||  || || | |  || ||||   |   |   | | |   | |   |||  | |||||  ||| ||  ||     |||||||  ||  | || ||||||||||| |||||||| ||||| |||||||| ||||| || || || || ||||| || || ||||| |||||||| || 
--------------------gtaatatatataacccata-gttatgttgt-cgttcttggtttgtatatagctctgataatagaaatactgtttttgattgattgtct-----agATATGCGATCCTTGGAGATGGTTGTCAGATGGAGGGTATTTCTAATGAAGCTTGCTCTCTAGCTGGCCATTGGGGACTTGGAAAGCTCATTGCTTTCTAC

upper sequence: GLYMA20G38720.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0022g01440.t01 (Vitis vinifera), 3'ss of exon 3
gtaggataactaaatcttgttttgttttcattctctctacattgtgatctatgtacttgcaattcctggtgttttaccagtgagaattgtttttttctttgttttactcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGCATGCTCACTTGCCGGTCACTGGGGTCTAGGGAAGCTTATTGCTTTATAT
          |||||| |  ||  |  |  |  | |     ||   ||||   |   | ||||   | | |  ||||  ||     | |||||||  | |   ||| ||||  || ||||| ||| | |||||||| ||||||||||| ||||||||||||||||  || || ||||| || |||||||| || |||||||| ||||| || |||
---------gtaaatcctcattcttggtgttcttgttctgtttcctatctcaatgtatacaatcatttg-gccttacttgtt----tggttttttgatattgattattctt--agGTATGTGATACTTGGTGATGGATGTCAAATGGAAGGAATTTCAAATGAAGTTTGTTCCCTTGCTGGGCACTGGGGGCTTGGGAAGCTGATTGCATTTTAT

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|22539779|gb|BU089622.1|BU089622
EST:     TTGGCTGCACGATTTAACAAGCCTGACAATGAGATTGTTGACCATTACAC                         ATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGC
genomic: TTGGCTGCACGATTTAACAAGCCTGACAATGAGATTGTTGACCATTACACgtaggataac ... actcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGC
EST: gi|8826649|gb|BE210379.1|BE210379
EST:     TTGGCTGCACGATTTAACAAGCCTGACAATGAGATTGTTGACCATTACAC                         ATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGC
genomic: TTGGCTGCACGATTTAACAAGCCTGACAATGAGATTGTTGACCATTACACgtaggataac ... actcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGC
EST: gi|18848458|gb|BM567678.1|BM567678
EST:     TTGGCTGCACGATTTAACAAGCCTGACAATGAGATTGTTGACCATTACAC                         ATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGC
genomic: TTGGCTGCACGATTTAACAAGCCTGACAATGAGATTGTTGACCATTACACgtaggataac ... actcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattcctggtgttttaccagtgagaattgtttttttctttgttttactcttgtagATATGTTATATTGGGTGATGGTTGTCAAATGGAGGGAATTTCAAATGAAGCATGCTCACTTGCCGGTCACTGGGGTCTAGGGAAGCTTATTGCTTTATAT
                          ttgtttttttctttgt  CT-rich tract
                        aattgtttttttcttt  TA-rich tract