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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATTTGCTAAGGAACTTATAGCCATACTCGAGGAAGCTGGACAGAAAGTGAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaactggaccccagtataaccagggcttacaatgtacatatcattttttggttccctacctcttctctcgattgtaagctgtgaagggttaccc...

Basic information

species Glycine max
transcript GLYMA08G20670.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20670.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G143246_T01 (Zea mays), 5'ss of exon 9
AGATTTGCTAAGGAACTTATAGCCATACTCGAGGAAGCTGGACAGAAAGTGAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaact---ggaccccagtataaccagggcttacaatgtacatatcattttttggttccc--tacctcttctctcgattgtaagctgtgaagggttaccc---
|||||||| |||||||||||    || || || ||||||||||| || || ||  |||||||||| || ||||| ||||||||||| |||||| |||||||| ||||  ||   |||   | || |    ||       |||| |  | |  ||  |    | ||  |   |  |   |  |||| |   | |      ||       
AGATTTGCCAAGGAACTTATTAATATTCTGGAAGAAGCTGGACAAAAGGTCAGCTCTGAATTAGCTGCTATGGGTCGTGGTGCACCTCCTCCATCTTCAGgtaagtttgctattggatatctgtttt-ttagtttcccaaatgaaagtcttgttcctgaagtgccattgatttctgaatgaattggattttttcccaattttttgcag
















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|193612514|gb|FK562153.1|FK562153
EST:     GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAG                         GTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGG
genomic: GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaac ... aatcaattagGTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGG
EST: gi|58020488|gb|CX707230.1|CX707230
EST:     GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAG                         GTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
genomic: GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaac ... aatcaattagGTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
EST: gi|208151711|gb|GD945554.1|GD945554
EST:     GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAG                         GTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
genomic: GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaac ... aatcaattagGTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
EST: gi|58020876|gb|CX707618.1|CX707618
EST:     GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAG                         GTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
genomic: GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaac ... aatcaattagGTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
EST: gi|209700617|gb|BW670335.1|BW670335
EST:     GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAG                         GTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
genomic: GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaac ... aatcaattagGTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
EST: gi|214005174|gb|DB985728.1|DB985728
EST:     GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAG                         GTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
genomic: GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaac ... aatcaattagGTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
EST: gi|7589443|gb|AW705217.1|AW705217
EST:     GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAA                         GTCCCCGAGGTTTCCAAGACCGCGGGAGGAGTTATGGCAG
genomic: GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaac ... aatcaattagGTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAG
EST: gi|58020680|gb|CX707422.1|CX707422
EST:     GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAG                         GTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
genomic: GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaac ... aatcaattagGTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
EST: gi|120495402|gb|EH223569.1|EH223569
EST:     GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAG                         GTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
genomic: GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaac ... aatcaattagGTCCCCGAGGTTTCCAAGACCGCGGGAGGGGTTATGGCAGTTCTCGTCCAT
EST: gi|15000832|gb|BI321646.1|BI321646
EST:     GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAG                         GTCCCCGAGGTTTCCAAGACCGCGGG
genomic: GAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaac ... aatcaattagGTCCCCGAGGTTTCCAAGACCGCGGG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGATTTGCTAAGGAACTTATAGCCATACTCGAGGAAGCTGGACAGAAAGTGAGTCCTGAATTAGCAGCAATGGGGCGTGGTGCACCACCTCCACCTTCAGgtcagttaactggaccccagtataaccagggcttacaatgtacatatcattttttggttccctacctcttctctcgattgtaagctgtgaagggttaccc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctcttc