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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataacatatgatcctttcttttatttttgggctcaagataaagaagaaacgtctaatgtttccttcacttatgttttaaatcagGAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATTTTTCTGCAATTTCGGCCTTAAAAATT

Basic information

species Glycine max
transcript GLYMA07G38750.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G38750.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G19150.1 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------------------gtataacatatgatcctttcttttatttttgggctcaagataaagaagaaacgtctaatgtttcc-ttcacttat--------gttttaaatcagGAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATTTTTCTGCAATTTCGGCCTTAAAAATT
                                    | || || ||       | |   |||||   | |  || |     ||     | | ||||||    |||  | |         | ||   ||||| || |||||||| |||||||| || |||||||||||||| |||||||| ||  |||| ||||| || || ||||| 
gttagtgcttgctctattcaattgtgtcatcagaaatttatcaaattcgaaactttaggattttaaagtttgagttttttcaggttactttgatgttttagctcatgtgttggaattgatcttgtgtcagGGAAGATAGCTGTGATTGGAGGATGTCGTGAATACACAGGAGCTCCATACTTCGCTGCCATTTCAGCTTTGAAAATC

upper sequence: GLYMA07G38750.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0020g02800.t01 (Vitis vinifera), 3'ss of exon 1
-------------gtataacatatgatcctttcttttatttttgggctcaagataaagaagaaacgtctaatgtttccttcacttatgttt-taaatcagGAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATTTTTCTGCAATTTCGGCCTTAAAAATT
              | |      |||||  ||  |||  | |     | |  ||| ||        | | |     |  | | |  | ||| | | |||||||| |||||||||||||| || || |||||||| |||||||| ||||| || ||||| || || || |||||||||
tacagaattaagattgtccaccgtgatctgtttgttttctgtacaaataagtatatagttctctgttatgaatccccactaagtactatttgttactcagGAAAAATAGCTGTTATTGGCGGCTGTCGTGAATATACAGGTGCCCCATACTTCTCTGCTATCTCAGCTTTAAAAATT
















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|298196391|gb|HO041134.1|HO041134
EST:     TCGAGCAATTACTCCTGCCCTTGATCCTACCAGACATAAAGGCCAGGCAG                         GAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATT
genomic: TCGAGCAATTACTCCTGCCCTTGATCCTACCAGACATAAAGGCCAGGCAGgtataacata ... tttaaatcagGAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATT
EST: gi|298190420|gb|HO032541.1|HO032541
EST:     TCGAGCAATTACTCCTGCCCTTGATCCTACCAGACATAAAGGCCAGGCAG                         GAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATT
genomic: TCGAGCAATTACTCCTGCCCTTGATCCTACCAGACATAAAGGCCAGGCAGgtataacata ... tttaaatcagGAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATT
EST: gi|298164148|gb|HO013793.1|HO013793
EST:     TCGAGCAATTACTCCTGCCCTTGATCCTACCAGACATAAAGGCCAGGCAG                         GAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATT
genomic: TCGAGCAATTACTCCTGCCCTTGATCCTACCAGACATAAAGGCCAGGCAGgtataacata ... tttaaatcagGAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATT
EST: gi|151398247|gb|EV268125.1|EV268125
EST:     TCGAGCAATTACTCCTGCCCTTGATCCTACCAGACATAAAGGCCAGGCAG                         GAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATT
genomic: TCGAGCAATTACTCCTGCCCTTGATCCTACCAGACATAAAGGCCAGGCAGgtataacata ... tttaaatcagGAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATT
EST: gi|298188749|gb|HO035442.1|HO035442
EST:     TCGAGCAATTACTCCTGCCCTTGATCCTACCAGACATAAAGGCCAGGCAG                         GAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATT
genomic: TCGAGCAATTACTCCTGCCCTTGATCCTACCAGACATAAAGGCCAGGCAGgtataacata ... tttaaatcagGAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggctcaagataaagaagaaacgtctaatgtttccttcacttatgttttaaatcagGAAATATAGCTGTTATTGGAGGTTGCCGTGAATACACAGGTGCTCCATATTTTTCTGCAATTTCGGCCTTAAAAATT
                     gtctaat  putative branch site (score: 3)
                                     acttatgttttaaat  TA-rich tract