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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGACATTGATTCTGCTGTCAGAACATACCACATGATGTCTCAGAGATGGTTCACTCATGCATCTCCAACACTTTTCAATGCAGGAACACCTAGGCCTCAGgtatagtttctgttaatgctctttccctccatgtctccctttttttgtgagcatgtggtgtgctttttgtccttattgtgtaagattactatggtgaccttatgcagttggatatgtttatgtgcattggcag

Basic information

species Glycine max
transcript GLYMA05G32070.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32070.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os02g56100.1 (Oryza sativa), 5'ss of exon 4
TGACATTGATTCTGCTGTCAGAACATACCACATGATGTCTCAGAGATGGTTCACTCATGCATCTCCAACACTTTTCAATGCAGGAACACCTAGGCCTCAGgtatagtttctgttaatgctctttccctccatgtctccctttttttgtgagcatgtggtgtgctttttgtccttattgtgtaagattactatggtgaccttatgcagttggatatgtttatgtgcattggcag
||| ||||| |||||| ||| ||| |||||||||||||||||| | ||||| |||||||| || ||||| ||||||||||| || || || |||||||| |||     | || |     || | || |  | |||    ||   || | |  |  |||| | ||| |  ||||   ||| | |                                                  
TGATATTGAATCTGCTATCAAAACGTACCACATGATGTCTCAGCGCTGGTTTACTCATGCTTCGCCAACCCTTTTCAATGCTGGCACTCCAAGGCCTCAAgtaa----tatgct-----tcctaccattgaagtccaatttggattattaaaa-atggtct-cttatgctcctctctgttttatgcag---------------------------------------------

upper sequence: GLYMA05G32070.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os06g07210.1 (Oryza sativa), 5'ss of exon 4
TGACATTGATTCTGCTGTCAGAACATACCACATGATGTCTCAGAGATGGTTCACTCATGCATCTCCAACACTTTTCAATGCAGGAACACCTAGGCCTCAGgtatagtttctgttaatgctctttccctccatgtctccctttttttgtgagcatgtggtgtgctttttgtccttattgtgtaagattactatggtgaccttatgcagttggatatgtttatgtgcattggcag
||||||||| |||||| |||  || |||||  ||||||||||| | ||||| |||||||| || || || ||||||||||| || || || ||||| || |||  |    | | |          |||    ||||     | |      || ||   |   |||||  ||  |    || |                                                   
TGACATTGAGTCTGCTATCAAGACCTACCATCTGATGTCTCAGCGCTGGTTTACTCATGCTTCACCGACCCTTTTCAATGCTGGCACTCCAAGGCCCCAAgtactgcacatttgaccagaaaaatccta---gtcttggactctgaaattgcttgct-tactcttttattctctgcaatgcag--------------------------------------------------

upper sequence: GLYMA05G32070.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv07s0031g01990.t01 (Vitis vinifera), 5'ss of exon 4
TGACATTGATTCTGCTGTCAGAACATACCACATGATGTCTCAGAGATGGTTCACTCATGCATCTCCAACACTTTTCAATGCAGGAACACCTAGGCCTCAGgtatagtttctgttaatgc--------tctt------tccctccatgtctcccttttt-ttgtgagcatgtggtgtgctttttgtcctt-attgtgtaagattactatggtgaccttatgcagttggata-tgtttatgtgcattggcag----------------------------
|||||||||||||||| ||| |||||||||  | ||||||||| | |||||||||||||| || || || |||||||||||||||||||| ||||| || ||||  ||       |           | ||          ||||| |  | |||||| || ||    | |    | |||||  |  || |||||| || ||  || |   || | | |||  ||| | | |||  ||  |  || ||                              
TGACATTGATTCTGCTATCAAAACATACCATTTAATGTCTCAGCGTTGGTTCACTCATGCTTCACCCACTCTTTTCAATGCAGGAACACCAAGGCCCCAAgtatgtttcacacgcacatgaactagattttatataacttgtccattttcctctttttcttatgtttttatttattacttttattagttgattgtggaatat-gctgttaggatcctttgc--ttgaacagtgtacattggtctttgctaatttctgtgttctgttatgtgctgacag

upper sequence: GLYMA05G32070.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S64_38V6.1 (Physcomitrella patens), 5'ss of exon 3
TGACATTGATTCTGCTGTCAGAACATACCACATGATGTCTCAGAGATGGTTCACTCATGCATCTCCAACACTTTTCAATGCAGGAACACCTAGGCCTCAGgtatagtttctgttaatgctctttccctccatgtctccctttttttgtgagcatgtggtgtgctttttgtccttattgtgtaagattactatggtgaccttatgcagttggatatgtttatgtgcattggcag
  |||| ||  | |   | |  ||||| ||||||||||| || ||||||||||| || || |||||||| || ||||| ||||| || ||  |||| |||||   | |        |  || ||   | | ||    | ||    ||  | || |    ||       ||| | | || | |  | || |  | ||  |  |||  |  |                       
GAACATCGAGGCGGTCCTAAAGACATATCACATGATGTCCCAAAGATGGTTCACCCACGCGTCTCCAACCCTATTCAACGCAGGGACTCCCCGGCCGCAGgttcggctatc-----tattccttttgtgcgtgcgctctttgcactg-aaccaagcctggt-----cagtcgtgaatgcg-agtactaattggttgttcgaatgttgcag-----------------------

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|193533015|gb|FK493325.1|FK493325
EST:     TCACTCATGCATCTCCAACACTTTTCAATGCAGGAACACCTAGGCCTCAG                         TTGAGTAGTTGCTTCCTTGTGTGCATGAAAGATGATAGTATAGAGGGAATA
genomic: TCACTCATGCATCTCCAACACTTTTCAATGCAGGAACACCTAGGCCTCAGgtatagtttc ... gcattggcagTTGAGTAGTTGCTTCCTTGTGTGCATGAAAGATGATAGTATAGAGGGAATA
EST: gi|18040033|gb|BM308327.1|BM308327
EST:     TCACTCATGCATCTCCAACACTTTTCAATGCAGGAACACCTAGGCCTCAG                         TTGAGTAGTTGCTTCCTTGTGTGCATG
genomic: TCACTCATGCATCTCCAACACTTTTCAATGCAGGAACACCTAGGCCTCAGgtatagtttc ... gcattggcagTTGAGTAGTTGCTTCCTTGTGTGCATG