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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttattctttattgttacctgaataatatcacaatttttgtagcgttgttacatttgagggagtgacttttttttttacttcctagtgcatatttt...

Basic information

species Glycine max
transcript GLYMA08G19660.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G19660.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv12s0034g01000.t01 (Vitis vinifera), 5'ss of exon 7
GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttattctttattgttacctgaataata--tcacaatttttgtagcgtt--gttacatttgagggagtgacttttttttttacttcctagtgcatatttt
| || |||||||||||||||||||||||||||||||| || ||||  || ||||| || ||| |  |||| ||||||||| |||  | | ||  ||    ||| |   |  | |  || || | ||  ||  ||| |       |||   |  | |  |||||  | | |   |||| |||
GTGTGGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAAGAGGGAACACCATTGTCGCCTGAGTCAGCTCGCATACTGgttcgttcctatcta--gtcgtttgactcgcaaattagtatattagcagtattaggttcctcactttggaacaagatatgctttta--ttcgaactcataattt
















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|192301236|gb|FG990186.1|FG990186
EST:     TGTTTGGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
genomic: TGTTTG-TGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|192328848|gb|FK022592.1|FK022592
EST:     TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|151393611|gb|EV263486.1|EV263486
EST:     TTGTCTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|24206192|gb|BU965445.1|BU965445
EST:     TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCT
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCT
EST: gi|151393020|gb|EV262895.1|EV262895
EST:     TTGTTTGTGAGGAAAGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|192302607|gb|FG994873.1|FG994873
EST:     TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCAACTTAGCTTAATTTGCAGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|7147014|gb|AW508936.1|AW508936
EST:     TTGTTTGTGAGGAAAGAAAGCCTTTGTCACCCGACGCTTCTCGTATACTG                         CGTTTAATGGGAAT-AAGATGGCTACATTTCGACTTA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTA
EST: gi|22932190|gb|BU549329.1|BU549329
EST:     TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|58018160|gb|CX704902.1|CX704902
EST:     TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|192302608|gb|FG994874.1|FG994874
EST:     TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCAACTTAGCTTAATTTGCAGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|192301600|gb|FG994784.1|FG994784
EST:     TTGTTTGTGAGGAAAGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|14990628|gb|BI316301.1|BI316301
EST:     TTGTTTGTGAGGAAAGAAAGCCTTTGTCACCCGATGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCGACTTATCTTAATTTGCAGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|192297638|gb|FG989931.1|FG989931
EST:     TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCTGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|14126392|gb|BG790830.1|BG790830
EST:     TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
EST: gi|151397245|gb|EV267118.1|EV267118
EST:     TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTACACTG                         CGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA
genomic: TTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttatt ... ttaattacagCGTTTAATGGGAATCAAGATGGCTACATTTCGACTTAGCTTAATTTGCAGA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTTGTGGAGCTTGTTTCGGATTTTGTTGTTTGTGAGGAAGGAAAGCCTTTGTCACCCGAGGCTTCTCGTATACTGgttagttattctttattgttacctgaataatatcacaatttttgtagcgttgttacatttgagggagtgacttttttttttacttcctagtgcatatttt

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