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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtatcgagttttttttctctcttttgtttctttatgaatagatttactcagaagtgaaggaatttaaattttcatgtgttcctctgccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATTACTCCTGATGATAAGCAGGAACTTGATGAGGCTCTACAGAGGGAG

Basic information

species Glycine max
transcript GLYMA06G33380.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 3'ss of exon 2
gtttgtatcgagttttttttctctcttttgtttctttatgaatagatttactcagaagtgaaggaatttaaattttcatgtgttcctctgccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATTACTCCTGATGATAAGCAGGAACTTGATGAGGCTCTACAGAGGGAG
               |   |  |        | || |   |  | |  | ||  |   |      || ||| || | |  | |||   |    |  |||||||| |||  |||   |||  | ||  | || || || || || |||||||| ||||| |||||||||||||| |||||||||
--------------gtgagttacagaaacaatactatgatatcaaacatcctatggtttcttatcatctaa-ttgtgaaat-ttcaaatataatttagGATAAGGAATTGTTTGGTTCAACTATACTCAAAGGATATCACACCAGATGATAAACAGGAGCTTGATGAGGCTCTCCAGAGGGAG

upper sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G473001_T01 (Zea mays), 3'ss of exon 2
gtttgtatcgagttttttttctctcttttgtttctttatgaatagatttactcagaagtgaaggaatttaaattttcatgtgttcctctgccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATTACTCCTGATGATAAGCAGGAACTTGATGAGGCTCTACAGAGGGAG
               ||  | |  |      | | || | | | ||  | | ||     |       || ||| || ||       | | | |  ||||||| | ||   |||   |||  | ||  | ||||| || ||||| ||||||||||||||||||||||||||||| || || |||
--------------gttagtttgccaaccagtgcattgt-agttgacatgcacaacttcgttcagcctttaatcttgatcc--caatattcttatcagGATACGCAACTGTTTGGTTCAACTCTACTCAAAAGATATCACTCCGGATGATAAGCAGGAACTTGATGAGGCTCTGCAAAGAGAG

upper sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G473001_T02 (Zea mays), 3'ss of exon 2
gtttgtatcgagttttttttctctcttttgtttctttatgaatagatttactcagaagtgaaggaatttaaattttcatgtgttcctctgccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATTACTCCTGATGATAAGCAGGAACTTGATGAGGCTCTACAGAGGGAG---------------
               ||  | |  |      | | || | | | ||  | | ||     |       || ||| || ||       | | | |  ||||||| | ||   |||   |||  | ||  | ||||| || ||||| ||||||||||||||||||||||||||||| || || |||               
--------------gttagtttgccaaccagtgcattgt-agttgacatgcacaacttcgttcagcctttaatcttgatcc--caatattcttatcagGATACGCAACTGTTTGGTTCAACTCTACTCAAAAGATATCACTCCGGATGATAAGCAGGAACTTGATGAGGCTCTGCAAAGAGAGGTACTTCTTTCAATC

upper sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 2
gtttgtatcgagttttttttctctcttttgtttctttatgaatagatttactcagaagtgaaggaatttaaattttcatgtgttcctctgccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATTACTCCTGATGATAAGCAGGAACTTGATGAGGCTCTACAGAGGGAG
|||||||   |  ||  |  |  | | || || |  ||| | |   ||| |||     |       ||| |  | || | | ||| ||| |    ||||||  | ||   |||| | ||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
gtttgtaatcaaattcctgcccttttgttcttgcactataatt---ttttctctcctttt------tttcacctctcttat-ttcttctact---cagGATCCGGAACTGTTTAGCCCAGTTATATGCCAAAGACATTACTCCTGATGATAAGCAGGAACTTGATGAGGCTCTACAGAGAGAG

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|5677022|gb|AI938152.1|AI938152
EST:     GCTCATCCAACTCAATCTGTCCGTAGGTCTTTGCTTCAAAAACATGGAAG                         GATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATTACTCCTGATGA
genomic: GCTCATCCAACTCAATCTGTCCGTAGGTCTTTGCTTCAAAAACATGGAAGgtttgtatcg ... tgccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATTACTCCTGATGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatttactcagaagtgaaggaatttaaattttcatgtgttcctctgccttacagGATAAGAAATAATTTAACTCAGTTGTATGCCAAAGACATTACTCCTGATGATAAGCAGGAACTTGATGAGGCTCTACAGAGGGAG
                                     tgttcctctgcctt  CT-rich tract
                     aatttaaattttcatg  TA-rich tract