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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTACAGCTCCTTCCAATGTAGTGGTGCTTACATCTGAAAATTTTAATGAGGTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgactaataattttcgtattgtttctatttttgtcttcaattcatgttgtggtttggactaaaatttggtaaaacttagttttacattacacactgagtattgtgaaaacactcatactgctagatctaataaattttgtgattctgctag

Basic information

species Glycine max
transcript GLYMA02G01750.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01750.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G159369_T01 (Zea mays), 5'ss of exon 5
CTACAGCTCCTTCCAATGTAGTGGTGCTTACATCTGAAAATTTTAATGAGGTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgactaataattttcgtattgtttctattt---ttgtcttcaattcatgttgtggtttggactaaaat---ttggtaaaacttagttttacattacacactgagtattgtgaaaacactcatactgctagatctaataaattttgtgattctgctag
|| |   |||||| |  || ||||| || || || || |  ||| |     ||||| | |||||||||||||||||| | |||||||||||||| || ||||  ||  || | || |||   || | || |  |   || | | ||  ||      |   |   | | || |   ||| | |  |||   ||||||                                                                 
CTGCCATTCCTTCAAGCGTCGTGGTTCTGACTTCAGAGACCTTTGACTCAATTGTCCTTGATGAAACCAAAGATGTCCTTGTTGAGTTTTATGCCCCATGgt--tggtta-tcatgttcaacttatgtccacctaaattatttccatctcgctactttactgaaattgaactgcattgttgacccttctgtttacag----------------------------------------------------------------

upper sequence: GLYMA02G01750.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G170845_T01 (Zea mays), 5'ss of exon 1
CTACAGCTCCTTCCAATGTAGTGGTGCTTACATCTGAAAATTTTAATGAGGTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgactaataattttcgtattgtttctattt---ttgtcttcaattcatgttgtggtttggactaaaat---ttggtaaaacttagttttacattacacactgagtattgtgaaaacactcatactgctagatctaataaattttgtgattctgctag
|| |   |||||| |  || ||||| || || || || |  ||| |     ||||| | |||||||||||||||||| | |||||||||||||| || ||||  ||  || | || |||   || | || |  |   || | | ||   |      |   |   | | || |   ||| | |  |||   ||||||                                                                 
CTGCCATTCCTTCAAGCGTCGTGGTTCTGACTTCAGAGACCTTTGACTCAATTGTCCTTGATGAAACCAAAGATGTCCTTGTTGAGTTTTATGCCCCATGgt--tggtta-tcatgttcaacttatgtccacctaaattatttccatcacgctactttactgaaattgaactgcattgttgacccttctgtttacag----------------------------------------------------------------
















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|208334619|gb|GE130464.1|GE130464
EST:     AAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTG                         GTGTGGACATTGCAAAAGTCTTGCTCCT
genomic: AAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgacta ... attctgctagGTGTGGACATTGCAAAAGTCTTGCTCCT
EST: gi|208044733|gb|GD841101.1|GD841101
EST:     TTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTG                         GTGTGGACATTGCAAAAGTCTTGCTCCT
genomic: TTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgacta ... attctgctagGTGTGGACATTGCAAAAGTCTTGCTCCT
EST: gi|193333978|gb|FK301366.1|FK301366
EST:     GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTG                         GTGTGGACATTGCAAAAGTCTTGCTCCT
genomic: GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgacta ... attctgctagGTGTGGACATTGCAAAAGTCTTGCTCCT
EST: gi|192333634|gb|FK026879.1|FK026879
EST:     GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTG                         GTGTGGACATTGCAAAAGTCTTGCTCCT
genomic: GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgacta ... attctgctagGTGTGGACATTGCAAAAGTCTTGCTCCT
EST: gi|58016979|gb|CX703721.1|CX703721
EST:     TTGTC-TAGATGAAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTG                         GTGTGGACATTGCAAAAGTCTTGCTCNT
genomic: TTGTCTTAGATG-AAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgacta ... attctgctagGTGTGGACATTGCAAAAGTCTTGCTCCT
EST: gi|208245788|gb|GE050596.1|GE050596
EST:     GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTG                         GTGTGGACATTGCAAAAGTCTTGCTCCT
genomic: GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgacta ... attctgctagGTGTGGACATTGCAAAAGTCTTGCTCCT
EST: gi|208340776|gb|GE133712.1|GE133712
EST:     GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTG                         GTTGTTGGACATTGACAAAAGTCTTGCTCCT
genomic: GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgacta ... attctgctagG-TG-TGGACATTG-CAAAAGTCTTGCTCCT
EST: gi|163921267|gb|EH038909.1|EH038909
EST:     GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTG                         GTGTGGACATTGCAAAAGTCTTGCTCCT
genomic: GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgacta ... attctgctagGTGTGGACATTGCAAAAGTCTTGCTCCT
EST: gi|193679432|gb|FK621042.1|FK621042
EST:     GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTG                         GTGTGGACATTGCAAAAGTCTTGCTCCT
genomic: GTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgacta ... attctgctagGTGTGGACATTGCAAAAGTCTTGCTCCT
EST: gi|193720823|gb|FK658987.1|FK658987
EST:     ATGTCTTGGTTGAGTTTTATGCACCCTG                         GTGTGGACATTGCAAAAGTCTTGCTCCT
genomic: ATGTCTTGGTTGAGTTTTATGCACCCTGgtactgacta ... attctgctagGTGTGGACATTGCAAAAGTCTTGCTCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTACAGCTCCTTCCAATGTAGTGGTGCTTACATCTGAAAATTTTAATGAGGTTGTCTTAGATGAAACCAAAGATGTCTTGGTTGAGTTTTATGCACCCTGgtactgactaataattttcgtattgtttctatttttgtcttcaattcatgttgtggtttggactaaaatttggtaaaacttagttttacattacacactgagtattgtgaaaacactcatactgctagatctaataaattttgtgattctgctag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG