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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATTGGGAGACAACAATGTCAATGTTTATGTGTCGGTTATCAGCATATCCAACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAGgtacaatctctactcttctttagaaatctagtgtatcttccaagaatataacccattttagctgttgaaactttaaatactaagtacttattttagttct...

Basic information

species Glycine max
transcript GLYMA06G17760.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G17760.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM5G826658_T01 (Zea mays), 5'ss of exon 2
CATTGGGAGACAACAATGTCAATGTTTATGTGTCGGTTATCAGCATATCCAACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAGgtacaatctctactcttctttagaaatctagtgtatcttccaagaatataacccattttagctgtt-gaaactttaaatactaagtacttattttagttct----
|  | ||   |||  |||   || ||| ||||||  | |  |||||||  || ||||||||||||||||| || ||||||||||| ||| |||| || |||||    | ||   ||        |     || | || |  || || ||   |   | | | |||| |  |   ||| |  |        | || |   ||    
CTGTTGGGTTCAAAGATGGGCATATTTTTGTGTCATTGACGAGCATATGGAATTTCCTTGGTCGTGTTGGAGGTGGCTACTTCTCTGAGATTATTGTCAGgtattgacactgacctatcc----accactgtttgtcatggaaaaa-atggtctgctattgttgttaggcatcataattttttcaccaaaacttaaaagcttttt

upper sequence: GLYMA06G17760.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G159732_T01 (Zea mays), 5'ss of exon 2
CATTGGGAGACAACAATGTCAATGTTTATGTGTCGGTTATCAGCATATCCAACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAGgtacaatctctactcttctttagaaatctagtgtatcttccaagaatataa-cccattttagctgttgaaactttaaatactaagtacttattttagttct-----
|  | ||   |||  ||||  || ||| ||||||  | |  |||||||  || ||||||||||||||||| || ||||||||||| ||| ||||  | |||||    | ||   ||         ||| | ||| | |     ||| ||   ||   | | | ||     |    | ||  |  ||      |  |  |       
CTGTTGGGTTCAAAGATGTACATATTTTTGTGTCATTGACGAGCATATGGAATTTCCTTGGTCGTGTTGGAGGTGGCTACTTCTCTGAGATTATTATCAGgtattgacactgacctatcc-----atc-actgtttgtaatgggaaaatgggcctgctattgttggcatcataggatatgtttggtttgaggtcaaagtaggatga
















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|22522871|gb|BU081682.1|BU081682
EST:     AACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAG                         GAGTTTTGGGTACCCTATACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
genomic: AACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAGgtacaatctc ... ttttaaacagGAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
EST: gi|192308109|gb|FK000437.1|FK000437
EST:     AACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAG                         GAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
genomic: AACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAGgtacaatctc ... ttttaaacagGAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
EST: gi|10231815|gb|BE800703.1|BE800703
EST:     GGCTACTTCTCAGAGGTTATAGTAAG                         GAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
genomic: GGCTACTTCTCAGAGGTTATAGTAAGgtacaatctc ... ttttaaacagGAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
EST: gi|20814932|gb|BQ299410.1|BQ299410
EST:     AACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAG                         GAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
genomic: AACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAGgtacaatctc ... ttttaaacagGAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
EST: gi|10845325|gb|BF068472.1|BF068472
EST:     AACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAG                         GAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
genomic: AACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAGgtacaatctc ... ttttaaacagGAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
EST: gi|20812859|gb|BQ297337.1|BQ297337
EST:     AACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAG                         GAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
genomic: AACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAGgtacaatctc ... ttttaaacagGAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
EST: gi|192308388|gb|FK000912.1|FK000912
EST:     AACTTCCTTGGTCGTGTTGGCGGCGGCTACTTCTCAGAGGTTATAGTAAG                         GAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT
genomic: AACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAGgtacaatctc ... ttttaaacagGAGTTTTGGGTACCCAAGACTTGCTGCATTGGCAGTGATTCAAGCAGGGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATTGGGAGACAACAATGTCAATGTTTATGTGTCGGTTATCAGCATATCCAACTTCCTTGGTCGTGTTGGTGGCGGCTACTTCTCAGAGGTTATAGTAAGgtacaatctctactcttctttagaaatctagtgtatcttccaagaatataacccattttagctgttgaaactttaaatactaagtacttattttagttct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG