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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtatgcatgtgtatatcatgtgcatgcctatgtactcttgtaaatggttgaggcaatcattggatgtctctataagttcacccagaaagtttatgttgtggtactgacgtctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGTCTTACAATCCCAAGATT

Basic information

species Glycine max
transcript GLYMA20G37330.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G37330.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g06410.1 (Oryza sativa), 3'ss of exon 3
gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtatgcatgtgtatatcatgtgcatgcctatgtactcttgtaa-atggttgaggcaatcattggatgtctctataagttcacccagaaagtttatgttgtggtactgacgtctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGTCTTACAATCCCAAGATT----
                                                                                   ||| || || | |   |   |||   |||  ||   || | |  |||| ||      |     |||  || |   | ||   |    | || |  || ||||||||||||||||||||||||||||||||| || || ||||| ||| | ||| | |||||    ||||  |   | || || ||| |      ||||| |    
---------------------------------------------------------------------------------tttatttattcgtctgctacctttgtttcaaatat---atttttaaataatttggtattgctgccttacattttctaagtgggtttatgtgctgtttttgcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCCGGTACTCTTATTCCATCAGATGTCTTAAGTTGGAAGGGCAACTCATTAAATTCTAATG----CAAGACTCACC

upper sequence: GLYMA20G37330.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G038982_T01 (Zea mays), 3'ss of exon 3
gttaaggcttttacatctttgtatttttcttgtat--ttgttaatttactaatttatgtatgcatgtgtatatcatgtgcatgcctatgtactcttgtaaatggttgaggcaatcattggatgtctcta---ta----agttcacccagaaagtttatgt-tgtggt-actgac--gtctcctactctgctttc------agGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGTCTTACAATCCCAAGATT----
||   |   |||| ||| ||| | |||   | |||  ||  ||   ||   | ||| | || | |  || |||  ||| ||||     ||| | || |   |  || ||     || || | || | |    ||    | ||||   |    |||  ||| | || | ||| |   || |     | || |||       |||||||||||||||||||| ||||||||||| ||  | ||||| ||||| ||||| |||||    || |  | | | || || ||| | |     || | |    
gtatcgatgttta-atcattgcactttgtgtatatacttcatagcataaatacttaag-atacttcagtttatgctgtccatgtgctagtaattttttgg-tacttaagatggacaatgaaagttttttgtttactatatttcaattaatttgttgctgtctatgtttactaagtagtttttgggtgtgattttttctgtagGGAGTTTTTGGTTGATCTGATGGCTGCTCCTGGTGCTCTTATTCCAGCAGATATCTTAAGTTGGAAAGGCAATTCGTTAAATTCTAATAG----AAAACTTGGC

upper sequence: GLYMA20G37330.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G044180_T02 (Zea mays), 3'ss of exon 4
gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtatgcatgtgtatatcatgtgcatgcctatgtactcttgtaaatggttgaggcaatcattggatgtctctataagttcacccagaaagtttatgttgtggtactgacgtctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGTCTTACAATCCCAAGATT---
||       |||| ||  ||||  |||  |  || ||   | | ||   | ||| | || | |     |||  | | ||||     |   | ||    ||  |  |   |||   | | ||   || || ||| ||  || |  ||| || |       | |  | | ||           |||||||||||||||||||| ||||||||||| ||  | ||||| ||||| ||||| |||||    || |  | | | || || |||   ||||  ||  |    
gtatcaatgttta-attattgtgctttgttcatacttcacagtataaatacttaag-atacgtcaagttatgctatccatgtgctagccttatttactatattccaattaat---ttgttgctactctatgtttactaagtagttttttggt-------taaatttttctgt---------agGGAGTTTTTGGTTGATCTGATGGCTGCTCCTGGTGCTCTTATTCCAGCAGATATCTTAAGTTGGAAAGGCAATTCGTTAAATTCT---AATCGAAAACTCGGC

upper sequence: GLYMA20G37330.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G175563_T01 (Zea mays), 3'ss of exon 3
gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtatgcatgtgtatatcatgtgcatgcctatgtactcttgtaaatggttgaggcaatcattggatgtctctataagttcacccagaaagtttatgttgtggtactgacgtctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGTCTTACAATCCCAAGATT---
||       |||| ||  ||||  |||  |  || ||   | | ||   | ||| | || | |     |||  | | ||||     ||  | ||    ||  |  |   |||   | | ||   || || ||| ||  || |  ||| || |       | |  | | ||           |||||||||||||||||||| ||||||||||| ||  | ||||| ||||| ||||| |||||    || |  | | | || || |||   ||||  ||  |    
gtatcaatgttta-attattgtgctttgttcatacttcacagtataaatacttaag-atacgtcaagttatgctatccatgtgctagtcttatttactatattccaattaat---ttgttgctactctatgtttactaagtagttttttggt-------taaatttttctgt---------agGGAGTTTTTGGTTGATCTGATGGCTGCTCCTGGTGCTCTTATTCCAGCAGATATCTTAAGTTGGAAAGGCAATTCGTTAAATTCT---AATCGAAAACTCGGC

upper sequence: GLYMA20G37330.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0030g01440.t01 (Vitis vinifera), 3'ss of exon 3
gttaaggcttttacatctttgtatttttcttgtatttgttaatttactaatttatgtatgcatgtgtatatcatgtgcatgcctatgtactct-tgtaaatggttgaggcaatcattggatgtctctataagttcacccagaaagtttatgttgtggtactgacgtctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGTCTTACAATCCCAAGATT-
                                                                                        | | | | ||||| ||  |   | |  || | ||| | ||||  |   ||   |    ||| ||  |||  || |   ||  |  |||| |||||||||||||||||||||||||||||  || || ||||||||||| |||||||| ||| | ||  | ||||||||| | || ||||| || ||||| || ||| 
-----------------------------------------------------------------------------------cgcacattttgtctaaatagtgaaactagttgttagttgt-tatatacatcatccgtaaccccttaagtcatggatctaatccctgtttttctgttttcagGGAGTTTTTGGTTGATCTCATGGGAGCCCCTGGGACACTTATTCCAGCTGACATTCTTAGTGCAAAGGATAGTTCTTTAAAGTCATATAATCC-AAAATTA

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|13311959|gb|BG405610.1|BG405610
EST:     ACTGGTGTGGAGGATGATGCTGTCAACATTATAAAGTTGGAGGGTGAAAG                         GGAGTNTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGA
genomic: ACTGGTGTGGAGGATGATGCTGTCAACATTATAAAGTTGGAGGGTGAAAGgttaaggctt ... ctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGA
EST: gi|208037513|gb|GD832670.1|GD832670
EST:     ACTGGTGTGGAGGATGATGCTGTCAACATTATAAAGTTGGAGGGTGAAAG                         GGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGA
genomic: ACTGGTGTGGAGGATGATGCTGTCAACATTATAAAGTTGGAGGGTGAAAGgttaaggctt ... ctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagttcacccagaaagtttatgttgtggtactgacgtctcctactctgctttcagGGAGTTTTTGGTTGATCTCATGGCTGCTCCAGGGACACTTATCCCAGCTGATATTTTAAGCACCAAGGATAGTGCCTTTAAGTCTTACAATCCCAAGATT
                            tactgac  putative branch site (score: 1)
                                    tctcctactctgcttt  CT-rich tract
            aaagtttat  TA-rich tract