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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagttaaatagtcttcccaagttccaacttattattattattattattattttgaatgcgttctcaactgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCCATCTCTGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC

Basic information

species Glycine max
transcript GLYMA04G39920.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G39920.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
gtaagagttaaat-------agtcttcccaagttccaacttattattattattattattattttga----atgcgttctcaactgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCCATCTCTGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC
|| ||| | || |         |  | ||||  |   | | | |  | || ||  |   || | ||         ||  | | || |||||| |  ||||||| | |||||  | || || ||||| || ||  ||||||| || ||||| || || ||||| |||||||| |||||||| ||||| ||||||||||| ||||
gtgagactcaatttcccggggattctaccaaactt--attaactgatcttcttgcttccatgtcgatcctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC

upper sequence: GLYMA04G39920.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaagagttaaatagtcttcccaagttccaacttattattattattattattattttgaatgcgttctcaactgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCCATCTCTGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC
|| ||| | ||  | | |            |  |   ||  |  | ||||||  ||  |     ||  |||      |||  |  | ||||| | |||||  |  | |||||||| || ||  | || || || ||||| ||||| || || ||||||||||||||||| ||||| ||||||||||| ||||
gtgagaatgaagcaatat------------atgtggaatggtcttcattattgcttcta-catatttacaaacacaccttgtttgaatgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC

upper sequence: GLYMA04G39920.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0067g02970.t01 (Vitis vinifera), 3'ss of exon 7
gtaagagttaaatagtcttcccaagttccaacttattattattattattattattttgaatgcgttctcaactgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCCATCTCTGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC
            |   | |   ||| |||| || |    | || |  |  | ||   ||||      ||   | ||  | | ||||||||||||||||||  |||| |||||| | |||||  |||| |||||||| || || || ||||| ||||| |||||||| || |||||||||||||| || || |
-----------gtgagcatttaaagatcca-ctaaccgcttttttcttcttcat---gaattttcggtcccatcttattctgtgcattgcagGTTTTCATTGTTCTATCCTGCTTGATCTCTGTCTCAGTCAATTTTAGCACCTTTCTTGTGATTGGCAAGACATCGCCCGTCACCTATCAGGTCCTGGGGC

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|254319936|gb|GR829232.1|GR829232
EST:     TTTTGACCAACCAAAATGTATTTGGTTTCAAGTATACGACACAAGTGACG                         GTTTTCATAATTCTTTCCTGCCTTATCTCCATCTCTGTCAATTTCAGTACG
genomic: TTTTGACCAACCAAAATGTATTTGGTTTCAAGTATACGACACAAGTGACGgtaagagtta ... tgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCCATCTCTGTCAATTTCAGTACG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attattattattattattttgaatgcgttctcaactgtttctttctgcattgcagGTTTTCATAATTCTTTCCTGCCTTATCTCCATCTCTGTCAATTTCAGTACGTTCCTTGTTATTGGAAAGACATCTCCAGTCACCTATCAGGTTCTTGGAC
                                  ctgtttctttctgc  CT-rich tract
     tattattattattttg  TA-rich tract