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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGTTGATGCATTATGCAACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAGgtccaaaattcgtcttatcatgaatggtttcataaaattacattcggaactaacattgaactcctattctgtttagcaaggatactttccttcttttacc...

Basic information

species Glycine max
transcript GLYMA10G36600.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G36600.2 (Glycine max), 5'ss of exon 12
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 5'ss of exon 13
GTTGTTGATGCATTATGCAACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAGgtccaaaattcgtcttatcatgaatggtttcataaaattacattcggaactaacattgaactcctattc-tgtttagcaaggatactttccttcttttacc-----
|| ||||||||  |||||||||| |||||||| |||||  |||||||||||||||||||||| ||||||||||||| || || | ||| || |    ||  |    ||  |  |    ||    |||   | || ||  |   |     | | ||| ||    ||| |       
GTGGTTGATGCGCTATGCAACGTCGTATCAGCATCACCGGCAAAAGCAGCTACAGCAGTTGTTCTTCAGgtccaaattttgt-tcatcttgtagaccttttt---tttggaaacaaggctg--tttgcttttctgtttgtagctgatttgaacactatctaagtttcattatgaa
















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|9564453|gb|BE473962.1|BE473962
EST:     ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAG                         GCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCANGTCAG
genomic: ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAGgtccaaaatt ... tacttgtcagGCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAG
EST: gi|112361173|gb|EE400151.1|EE400151
EST:     ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAG                         GCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAG
genomic: ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAGgtccaaaatt ... tacttgtcagGCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAG
EST: gi|19348200|gb|BM892732.1|BM892732
EST:     ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAG                         GCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAG
genomic: ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAGgtccaaaatt ... tacttgtcagGCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAG
EST: gi|151406577|gb|EV276392.1|EV276392
EST:     ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAG                         GCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAG
genomic: ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAGgtccaaaatt ... tacttgtcagGCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAG
EST: gi|9259983|gb|BE348130.1|BE348130
EST:     ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAG                         GCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAG
genomic: ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAGgtccaaaatt ... tacttgtcagGCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAG
EST: gi|11687896|gb|BF595572.1|BF595572
EST:     ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAG                         GCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCATGTCAG
genomic: ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAGgtccaaaatt ... tacttgtcagGCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAG
EST: gi|22524291|gb|BU083102.1|BU083102
EST:     ATGTTGTGTCAGCCTCACCAACAAAAGCAGCTACGGCAGTTGTACTTCAG                         GCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTTAGGTCAG
genomic: ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAGgtccaaaatt ... tacttgtcagGCGGAGCGGGAATTGCAGCCCTGGATTGCCAAGGATGATGATTCAGGTCAG
EST: gi|15200260|gb|BI424257.1|BI424257
EST:     ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAG                         GCGGAGCGGGAATTGCAGCCC
genomic: ACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAGgtccaaaatt ... tacttgtcagGCGGAGCGGGAATTGCAGCCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGTTGATGCATTATGCAACGTTGTATCAGCCTCACCAACAAAAGCAGCTACAGCAGTTGTACTTCAGgtccaaaattcgtcttatcatgaatggtttcataaaattacattcggaactaacattgaactcctattctgtttagcaaggatactttccttcttttacc

- - - - - - - - - - - - - - - - - - - - - -  GCAGCT