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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccgatttcctttttttttcaatttatttttgctctacgttttaattttcaatcgtgtgtgttaagcttttggtgattattttgtacgtgtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTCAGAAAGTGGAAGCGCCGGTTGCAGTGGTGACCGGAGCTTCCAGAGGCAT

Basic information

species Glycine max
transcript GLYMA18G01280.1
intron # 1
splice site 3'
intron type U2

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|5058145|gb|AI736621.1|AI736621
EST:     TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCG                         GTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
genomic: TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCGgtaccgattt ... gtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
EST: gi|213600146|gb|DB964310.1|DB964310
EST:     TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCG                         GTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
genomic: TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCGgtaccgattt ... gtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
EST: gi|298177236|gb|HO023483.1|HO023483
EST:     TCCCGTTTCCGGTCTTCGTCACCGATCGAATACACCGTTTAGCTCCTCCG                         GTGTGAGAGTACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
genomic: TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCGgtaccgattt ... gtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
EST: gi|7042369|gb|AW472263.1|AW472263
EST:     TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCG                         GTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
genomic: TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCGgtaccgattt ... gtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
EST: gi|22540327|gb|BU090170.1|BU090170
EST:     TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCG                         GTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
genomic: TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCGgtaccgattt ... gtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
EST: gi|192334676|gb|FK025223.1|FK025223
EST:     TCCCATTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCG                         GTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
genomic: TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCGgtaccgattt ... gtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
EST: gi|298167992|gb|HO013255.1|HO013255
EST:     TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCG                         GTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
genomic: TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCGgtaccgattt ... gtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
EST: gi|192296853|gb|FG990229.1|FG990229
EST:     TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCG                         GTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
genomic: TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCGgtaccgattt ... gtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
EST: gi|298187125|gb|HO034274.1|HO034274
EST:     TCCCGTCTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCG                         GTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
genomic: TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCGgtaccgattt ... gtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
EST: gi|19345915|gb|BM890795.1|BM890795
EST:     TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCG                         GTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
genomic: TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCGgtaccgattt ... gtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
EST: gi|192333774|gb|FK025497.1|FK025497
EST:     TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCG                         GTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC
genomic: TCCCGTTTCCGGTCTTCGTCACCGATCGAATACTCCGTTTAGCTCCTCCGgtaccgattt ... gtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttcaatcgtgtgtgttaagcttttggtgattattttgtacgtgtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTCAGAAAGTGGAAGCGCCGGTTGCAGTGGTGACCGGAGCTTCCAGAGGCAT
 ttttaat  putative branch site (score: 3)
                               attattttgta  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaccgatttcctttttttttcaatttatttttgctctacgttttaattttcaatcgtgtgtgttaagcttttggtgattattttgtacgtgtaagtgtagGTGTGAGAGCACAGGTTGCTACTCTGGAGGAAGCAGGAACCGGAGCAACTCAGAAAGTGGAAGCGCCGGTTGCAGTGGTGACCGGAGCTTCCAGAGGCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT