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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTATTGTTGGGACGTGGATTATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaactattctcgttttatttataataatgttttgatagttatgaatatgaactatgcaatttactgatttccataatcttcatttgcag

Basic information

species Glycine max
transcript GLYMA16G03410.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G03410.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g45050.2 (Oryza sativa), 5'ss of exon 3
------------------------------ATTATTGTTGGGACGTGGATTATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaactattctcgttttatttataataatgttttgatagttatgaatatgaacta-tgcaatttactgatttccataatcttcatttgcag
                               || | || ||    ||| || | ||  || | |||||||| ||||||||| |||||||||||||||| |||||       |||| | ||   |    |    | |||   | | |||  | | | | | | | || ||| ||   || ||                
AATTTGCTTATGCTGGTCCTCTTTATTAAGGTTGTCGTGGGTCTCTGGGTTCTCTCTGTTCTTGGGAGCTGCTGCAATTTCCTGACCTTGTTCTACATAGgtaa------ttattttggtacaacaactgtacaagttaccacatttagcactgttaccaactacagttttctttcttgcag---------------

upper sequence: GLYMA16G03410.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g45050.1 (Oryza sativa), 5'ss of exon 4
ATTATTGTTGGGACGTGGATTATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaactattctcgttttatttataataatgttttgatagttatgaatatgaacta-tgcaatttactgatttccataatcttcatttgcag
 || | || ||    ||| || | ||  || | |||||||| ||||||||| |||||||||||||||| |||||       |||| | ||   |    |    | |||   | | |||  | | | | | | | || ||| ||   || ||                
GTTGTCGTGGGTCTCTGGGTTCTCTCTGTTCTTGGGAGCTGCTGCAATTTCCTGACCTTGTTCTACATAGgtaa------ttattttggtacaacaactgtacaagttaccacatttagcactgttaccaactacagttttctttcttgcag---------------

upper sequence: GLYMA16G03410.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv15s0046g01760.t01 (Vitis vinifera), 5'ss of exon 4
ATTATTGTTGGGACGTGGATTATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaactattctcgttttatttataataatgttttgatagttatgaatatgaactatgcaatttactgatttccataatcttcatttgcag
||||||| |||   |||| |  | || ||  ||||||| || |||||||||||||||||||| |||||  ||| || |  ||  | |  |||| |  | | | ||  | |||    ||||   ||   | |||  | ||  || ||   || || ||      |||
ATTATTGCTGGCCTGTGGGTACTGTCGATCCTGGGGAGTTGCTGCAATTTCTTGACCTTGTTTTACATAAgtatga-ctgctggttttatttt-taaacatttataatatgaactatatgttgatctgccatgttaatttttg-ttattatgattttggaaaacag

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|6724931|gb|AW309330.1|AW309330
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|6747018|gb|AW317474.1|AW317474
EST:     TATATCTATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|9439799|gb|BE440313.1|BE440313
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATT
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|11413441|gb|BF425452.1|BF425452
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|151399497|gb|EV269368.1|EV269368
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTT-GTTGCATACGGT-CCTGTCATCTATGACAAGTA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTA
EST: gi|12773507|gb|BG238434.1|BG238434
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATG
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATG
EST: gi|151410252|gb|EV280067.1|EV280067
EST:     TATATCAATTGTGGGGAGCTGGTGTAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|19345746|gb|BM890626.1|BM890626
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|22522564|gb|BU081375.1|BU081375
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|22524798|gb|BU083609.1|BU083609
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|6914768|gb|AW396298.1|AW396298
EST:     ATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: ATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|10252850|gb|BE820616.1|BE820616
EST:     ATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: ATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|26047825|gb|CA784486.1|CA784486
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|14991649|gb|BI317322.1|BI317322
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|192294452|gb|FG987381.1|FG987381
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|192321786|gb|FK013192.1|FK013192
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|57575556|gb|CX548531.1|CX548531
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|151393790|gb|EV263665.1|EV263665
EST:     ATATCAATTGTGGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: ATATCAATTGTGGGG-AGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|192300856|gb|FG991178.1|FG991178
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
EST: gi|57575716|gb|CX548691.1|CX548691
EST:     TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTG                         TCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA
genomic: TATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaa ... tcatttgcagTCTTTGTTTTGTTGCATACGGTTCCTGTCATCTATGACAAGTATGAGGATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTATTGTTGGGACGTGGATTATATCAATTGTGGGGAGCTGGTGCAATTTCTTGACCTTGTTCTACATTGgtaagaacaactattctcgttttatttataataatgttttgatagttatgaatatgaactatgcaatttactgatttccataatcttcatttgcag

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