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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGCCGTAAATACAGTATTACAAGATGAGAGGGACTTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatctgtctctgctcaggttctgttgtggacgctaattttacacaagaaattctctgtagcacacccaaacatgcaaatttctggcagttattg...

Basic information

species Glycine max
transcript GLYMA07G00610.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G00610.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G011101_T01 (Zea mays), 5'ss of exon 3
GTTGCCGTAAATACAGTATTACAAGATGAGAGGGACTTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatctg------tctctgctcaggttctgttgtggac-gctaattttacacaagaaattctctgtagcacacccaaacatgcaa-atttctggcagttattg
|| || || ||||| ||  | ||||| |||| ||| ||| |||| |||||||||||||| ||||| |||||||| ||||| |||||||||||| |         |      ||| |||    || |||  | |   |||   |   |   ||| |  |      | | |  |  |  ||||  ||||       
GTGGCAGTGAATACTGTGATTCAAGACGAGAAGGAATTCTTGAATCACATTATCAAGTCAACAAACATGAAGTGTCTGACACCACCgtaagttgttcagtaaactggtcattcatgttgacctgcggatagatttatttctgcttcactatcttta-attttgtctatatctatattattttaggca-------

upper sequence: GLYMA07G00610.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G094699_T01 (Zea mays), 5'ss of exon 3
GTTGCCGTAAATACAGTATTACAAGATGAGAGGGACTTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagtt--atctgtctctgctcaggttctgttgtggacg-ctaattttacacaagaaattctctgtagcacacccaaacatgcaaatttctggcagttattg
|| || || ||||| ||  | || ||||||| ||| ||| |||| || ||||| ||||| ||||| |||||||| || || ||||||||||||  | |     | |  ||  | |  || |   |  ||    ||   |  |   || | | |         | | ||    | |      ||| |   
GTGGCGGTGAATACTGTGATCCAGGATGAGAAGGAATTCTTGAATCATATTATTAAGTCCACAAACATGAAGTGTCTAACACCACCgtaagttccaacaaatccagaccatatacatttatctgcatctggaattgtgcctgcctttgtatattaatgctagagatatctgtagtgtcattagtca---
















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|298177195|gb|HO023442.1|HO023442
EST:     TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAG
genomic: TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
EST: gi|10233968|gb|BE802856.1|BE802856
EST:     TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCANACCTTTATGCTAA
genomic: TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
EST: gi|22523781|gb|BU082592.1|BU082592
EST:     TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
genomic: TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
EST: gi|21676110|gb|BQ628461.1|BQ628461
EST:     TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
genomic: TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
EST: gi|209718244|gb|BW657849.1|BW657849
EST:     TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
genomic: TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
EST: gi|14011032|gb|BG725954.1|BG725954
EST:     TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGGATTTGTGGATTCCTTGCTG
genomic: TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGG-ATT-GTGGATTCCTTGCTG
EST: gi|193385928|gb|FK352354.1|FK352354
EST:     CCTGAACCACATTATCGAGTCTACAAATAATAGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
genomic: CCTGAACCACATTATCAAGTCTACAAAT-AT-GAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
EST: gi|151408238|gb|EV278046.1|EV278046
EST:     TTCCTGAACCACATTGTCAAGTCTACAAATATGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
genomic: TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
EST: gi|208290586|gb|GE082342.1|GE082342
EST:     AACCACATTGTCAAGTCTACAAATATGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
genomic: AACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
EST: gi|22525741|gb|BU084552.1|BU084552
EST:     TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
genomic: TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
EST: gi|207691805|gb|GD674808.1|GD674808
EST:     TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
genomic: TTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
EST: gi|6070472|gb|AW099859.1|AW099859
EST:     TCCTGAACCACATTGGTCAAGTCTACAAATATGAAGTGCCTGACTCCACC                         ATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA
genomic: TCCTGAACCACATTA-TCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatc ... gtttgtttagATCGGCATTGGAAGGGGATTGTGGATTCCTTGCTGCAAACCTTTATGCTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGCCGTAAATACAGTATTACAAGATGAGAGGGACTTCCTGAACCACATTATCAAGTCTACAAATATGAAGTGCCTGACTCCACCgtaagttatctgtctctgctcaggttctgttgtggacgctaattttacacaagaaattctctgtagcacacccaaacatgcaaatttctggcagttattg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacaccc