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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGAGGCTGAGATTTCCCCTTCCACCTTGTATGCCATTGCTTGTGTTATGGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattattaaacattatgcaaaaaatagctaacgttacaaaatttaaaaatatatgggtgaatttgtacttgtgttttcatcag

Basic information

species Glycine max
transcript GLYMA08G14670.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G14670.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G155242_T01 (Zea mays), 5'ss of exon 5
AATGAGGCTGAGATTTCCCCTTCCACCTTGTATGCCATTGCTTGTGTTATGGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattattaaacat-tatgcaaaaaatagctaacgttacaa----aatttaaaaatatatggg--tgaatttgtacttgtgttttcatcag-------------------
|| ||||| ||| | || || || ||  | ||||||||||| ||||| |||||    || || ||||||||||| ||||| |||||||||||||| || |||   |  ||     | | |||||||  |   |   ||| ||       |  |||  |  ||||   || |||| |  |       | || |                    
AACGAGGCGGAGGTATCACCATCAACACTATATGCCATTGCCTGTGTCATGGAGGGGGTGCCGTTCATCAATGGGAGCCCCCAGAACACCTTTGTGCCTGgtgcgtggtttggtgtgtttgcaaaagcttcatggtgttgcatttctgttccaaagtttcatggtgttgtatttctgttccaaggcttattatacctgttgcatgttcgtag

upper sequence: GLYMA08G14670.2 (Glycine max), 5'ss of exon 5
lower sequence: AT5G10170.1 (Arabidopsis thaliana), 5'ss of exon 5
AATGAGGCTGAGATTTCCCCTTCCACCTTGTATGCCATTGCTTGTGTTATGGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttatta-ttaaacattatgcaaaaaatagctaacgttacaaaatttaaaaatatatgggtgaatttgtacttgtgttttcatcag
 |||||||||||||||| ||||| ||  | || ||||||||||||||| | || || |||||||| ||||||||||| || || ||||| |||||||| |||   | | ||||||  |||  | | | ||  ||| |      |||||     ||||    | |  || | ||| | || |   |||
GATGAGGCTGAGATTTCTCCTTCTACACTTTACGCCATTGCTTGTGTTCTTGAGAACGTTCCTTTTATCAATGGAAGTCCACAAAACACTTTTGTCCCTGgtaactaaattaaactatatctagatagta-ttaatgaccttcaattt---tctatagtaatcacattttgcttatattata--cag

upper sequence: GLYMA08G14670.2 (Glycine max), 5'ss of exon 5
lower sequence: AT4G39800.1 (Arabidopsis thaliana), 5'ss of exon 5
AATGAGGCTGAGATTTCCCCTTCCACCTTGTATGCCATTGCTTGTGTTATGGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattattaaacattatgcaaaaaatagctaacgttacaaaatttaaaaatatatgggtgaatttgtacttgtgttttcatcag
 ||||||||||||| || ||||| ||  | ||||| |||||||||||| | ||     | || |||||||||||||||||||| ||||||||||| ||||||||  | | |       |  ||  | |   | |     ||| |||  |||  ||   |    ||||      | ||||     ||
GATGAGGCTGAGATCTCTCCTTCAACACTTTATGCGATTGCTTGTGTTCTTGAGGGAATCCCGTTCATCAATGGAAGCCCTCAAAACACCTTTGTTCCAGgtttcatgt-agttgagttttaatcactcattgatcaatcaatattggaaatcat---gactgattttcttgggggtttgttgtag

upper sequence: GLYMA08G14670.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 5'ss of exon 5
AATGAGGCTGAGATTTCCCCTTCCACCTTGTATGCCATTGCTTGTGTTATGGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattattaaacattatgcaaaaaatagctaacgttacaaaatttaaaaatatatgg-gtgaatttgtacttgtgttttcatcag--------------------
|||||| ||||||| || |||||||||||||||||  | |||||||| |||||||||||||| || |||||||||||||| |||||||| ||||| |||||||  | ||   | ||| | |        |  || ||||  || |    | | |   || ||  | |   |||  ||||||  |                       
AATGAGCCTGAGATCTCTCCTTCCACCTTGTATGCTCTGGCTTGTGTCATGGAAAATGTTCCCTTTATCAATGGAAGCCCACAGAACACTTTTGTTCCAGgttcttaatctgaaattttccttttctatgtgaaggttatgaattcatcatagagggggcgtctaatctcactcatgtttttgttgtcaatctttgtatgtcttcag

upper sequence: GLYMA08G14670.2 (Glycine max), 5'ss of exon 5
lower sequence: EFJ37320 (Selaginella moellendorffii), 5'ss of exon 5
AATGAGGCTGAGATTTCCCCTTCCACCTTGTATGCCATTGCTTGTGTTATGGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattattaaacattatgcaaaaaatagctaacgttacaaaatttaaaaatatatg-ggtgaatttgtacttgtgttttcatcag
 | ||| | || || || || |||||  | || ||| | || ||| |    ||   ||||||||||||||| || ||||| |||||||| |||||||||||| |  | |      || | | |    |        |   || |  |     |||    |||| ||    |                
GACGAGCCCGAAATCTCTCCCTCCACTATTTACGCCTTGGCATGTATCCAAGAGGGTGTTCCTTTCATCAACGGGAGCCCCCAGAACACTTTTGTCCCAGgtgtcct-tcgttttttctcccagtttttctcggtttgctaagaagtgtgtgtatgcacggtgcatggccag---------------

upper sequence: GLYMA08G14670.2 (Glycine max), 5'ss of exon 5
lower sequence: EFJ27629 (Selaginella moellendorffii), 5'ss of exon 5
AATGAGGCTGAGATTTCCCCTTCCACCTTGTATGCCATTGCTTGTGTTATGGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattattaaacattatgcaaaaaatagctaacgttacaaaatttaaaaatatatg-ggtgaatttgtacttgtgttttcatcag
 | ||| | || || || || |||||  | || ||| | || ||| |    ||   ||||||||||||||| || ||||| |||||||| |||||||||||| |  | |      || | | |    |        |   || |  |     |||    |||| ||    |                
GACGAGCCCGAAATCTCTCCCTCCACTATTTACGCCTTGGCGTGTATCCAAGAGGGTGTTCCTTTCATCAACGGGAGCCCCCAGAACACTTTTGTCCCAGgtgtcct-tcgttttttctcccagtttttctcggtttgctaagaagtgtgtgtatgcacggtgcatggccag---------------

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|10233961|gb|BE802849.1|BE802849
EST:     GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAG                         GACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
genomic: GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
EST: gi|31561688|gb|CD487526.1|CD487526
EST:     GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAG                         GACTCATTGATCTGGCCATCA
genomic: GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCA
EST: gi|14011656|gb|BG726578.1|BG726578
EST:     ATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAG                         GACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
genomic: ATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
EST: gi|5678158|gb|AI939288.1|AI939288
EST:     GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTTCCAG                         GACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
genomic: GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
EST: gi|22524419|gb|BU083230.1|BU083230
EST:     GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAG                         GACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
genomic: GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
EST: gi|26058223|gb|CA801137.1|CA801137
EST:     GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAG                         GACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
genomic: GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
EST: gi|120494127|gb|EH222294.1|EH222294
EST:     GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAAAACCTTTGTCCCAG                         GACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
genomic: GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
EST: gi|120492592|gb|EH220759.1|EH220759
EST:     GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAG                         GACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
genomic: GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
EST: gi|15284727|gb|BI468618.1|BI468618
EST:     GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAG                         GACTCATTGATCTGGCCATCAAAAGG
genomic: GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCAAAAGG
EST: gi|120492384|gb|EH220551.1|EH220551
EST:     GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAG                         GACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
genomic: GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
EST: gi|15204497|gb|BI427265.1|BI427265
EST:     ACCTTTGTCCCAG                         GACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
genomic: ACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
EST: gi|15203059|gb|BI425827.1|BI425827
EST:     GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAG                         GACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT
genomic: GGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattatt ... ttttcatcagGACTCATTGATCTGGCCATCAAAAGGAATAGTTTGATTGGAGGAGATGACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGAGGCTGAGATTTCCCCTTCCACCTTGTATGCCATTGCTTGTGTTATGGAAAATGTTCCTTTCATCAATGGAAGCCCTCAGAACACCTTTGTCCCAGgtttattattaaacattatgcaaaaaatagctaacgttacaaaatttaaaaatatatgggtgaatttgtacttgtgttttcatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG