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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCAGATTGAGCCCATAAGACTGCCCTCGGTAGAGGAAATCCGTGGTCAAGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccattcaatcctcacttcttcttttcttttttcttttttctttttttcctgtttttccgatagattttagcacatatttcacctctgcttaatga...

Basic information

species Glycine max
transcript GLYMA09G35780.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G35780.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv06s0004g07140.t01 (Vitis vinifera), 5'ss of exon 1
CCTCAGATTGAGCCCATAAGACTGCCCTCGGTAGAGGAAATCCGTGGTCAAGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccattcaatcctcacttcttcttttcttttttcttttttc---tttttttcctgtttttccgatagattttagcacatatttcacctctgcttaatga
|||||||||||||||||| || ||||| | || ||||| ||| | || ||||||||||||||||| ||||| || ||||| |||| ||||||||| ||||||  |  ||  |||  || |||    |||  || | || |||||    || ||    || |||   | |   ||||   |  ||||     | || |   | |
CCTCAGATTGAGCCCATACGAATGCCCACAGTGGAGGAGATCAGAGGCCAAGACATTTGGAACAACTGTGCTGTTCGCAGCGTTGCCAGTGGAGTAATGGgtgaga-atgaaataatccctttacgtttcattatgtcgtttttggaattattagtttggtttcatgttttctttt--tatttattatctgtttggtcgctaa
















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|298189377|gb|HO037780.1|HO037780
EST:     AGACATTTGGAACAATTGTGCAGTGCGCGGTGTTGTCAGTGGAGTCGTGG                         GTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
genomic: AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccatt ... gttttttcagGTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
EST: gi|24136089|gb|BU926599.1|BU926599
EST:     AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGG                         GTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
genomic: AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccatt ... gttttttcagGTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
EST: gi|298176547|gb|HO023134.1|HO023134
EST:     AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGG                         GTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
genomic: AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccatt ... gttttttcagGTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
EST: gi|26047885|gb|CA784534.1|CA784534
EST:     AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGG                         GTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
genomic: AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccatt ... gttttttcagGTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
EST: gi|193575047|gb|FK530228.1|FK530228
EST:     AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGG                         GTGGCGGGCTTGGCATCTTCATAGGGTTTATTTCTTGGAGCACTGGACAAC
genomic: AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccatt ... gttttttcagGTGGCGGGCTTGGCATCTTCAT-GGGTTTATTTCTTGGAGCACTGGACAAC
EST: gi|298188673|gb|HO035366.1|HO035366
EST:     AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGG                         GTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
genomic: AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccatt ... gttttttcagGTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
EST: gi|298165804|gb|HO008775.1|HO008775
EST:     AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGG                         GTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
genomic: AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccatt ... gttttttcagGTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
EST: gi|13790875|gb|BG653466.1|BG653466
EST:     AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGG                         GTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
genomic: AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccatt ... gttttttcagGTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
EST: gi|31307580|gb|CD392783.1|CD392783
EST:     AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGG                         TTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
genomic: AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccatt ... gttttttcagGTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
EST: gi|298169968|gb|HO018592.1|HO018592
EST:     AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGG                         GTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC
genomic: AGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccatt ... gttttttcagGTGGCGGGCTTGGCATCTTCATGGGTTTATTTCTTGGAGCACTGGACAACC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTCAGATTGAGCCCATAAGACTGCCCTCGGTAGAGGAAATCCGTGGTCAAGACATTTGGAACAATTGTGCAGTGCGCAGTGTTGTCAGTGGAGTCATGGgtatgccattcaatcctcacttcttcttttcttttttcttttttctttttttcctgtttttccgatagattttagcacatatttcacctctgcttaatga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG