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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgctcaattcaagatcatatgcatttattggtggtagctgaaatacgatagataccatgttttttttatcactaactgagaactggtgttacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTAGAGGTCTGGTTAGAACAGATGAAAGCAAACAGAACATTGGTGCTGCAGA

Basic information

species Glycine max
transcript GLYMA07G15960.1
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|192323796|gb|FK015607.1|FK015607
EST:     GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|193479927|gb|FK447246.1|FK447246
EST:     GGCGGGGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTAC-AAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|15202882|gb|BI425650.1|BI425650
EST:     GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|120530205|gb|EH258339.1|EH258339
EST:     GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208335070|gb|GE127107.1|GE127107
EST:     GCGGGGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|209706218|gb|BW680909.1|BW680909
EST:     GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208150242|gb|GD950259.1|GD950259
EST:     GTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTAC-AAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|15288058|gb|BI471949.1|BI471949
EST:     GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208030411|gb|GD828869.1|GD828869
EST:     GTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTAC
genomic: GTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTAC
EST: gi|20207666|gb|BQ133755.1|BQ133755
EST:     GCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|193574651|gb|FK532590.1|FK532590
EST:     GGCGGGGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTAC-AAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208207980|gb|GE002973.1|GE002973
EST:     AGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: AGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208325375|gb|GE124083.1|GE124083
EST:     GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|58016121|gb|CX702863.1|CX702863
EST:     TAAGAGTACTGTGCTTG-TACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAG-GAGGCCAAACCAATATGTGGCTA
genomic: TAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|193330387|gb|FK295287.1|FK295287
EST:     GGCGGGGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|193444430|gb|FK408454.1|FK408454
EST:     GGCGGGGTCTAAGAGTACTGTGCTTGTTACGGGAACGGGTGGTCGCACAG                         GACAAATAGTTTAC-AAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|209725254|gb|BW672729.1|BW672729
EST:     GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|193435548|gb|FK399376.1|FK399376
EST:     TGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTAC-AAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: TGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208156953|gb|GD956367.1|GD956367
EST:     GGGAGCGGGTGGTTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCT
genomic: GGGAGCGGGTGG-TCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCT
EST: gi|209710151|gb|BW658900.1|BW658900
EST:     GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|193508960|gb|FK465556.1|FK465556
EST:     GGCGGGGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|193593497|gb|FK547975.1|FK547975
EST:     GGCGGGGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAGTAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GGCGGAGTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
EST: gi|208065729|gb|GD864744.1|GD864744
EST:     GTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAG                         GACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA
genomic: GTCTAAGAGTACTGTGCTTGTTACGGGAGCGGGTGGTCGCACAGgtgaggcatt ... tacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgatagataccatgttttttttatcactaactgagaactggtgttacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTAGAGGTCTGGTTAGAACAGATGAAAGCAAACAGAACATTGGTGCTGCAGA
                         cactaac  putative branch site (score: 1)
               ttttttttatcactaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgctcaattcaagatcatatgcatttattggtggtagctgaaatacgatagataccatgttttttttatcactaactgagaactggtgttacatttcagGACAAATAGTTTACAAAAAATTAAGAGAGAGGCCAAACCAATATGTGGCTAGAGGTCTGGTTAGAACAGATGAAAGCAAACAGAACATTGGTGCTGCAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - -caattca
- - - - - - - - - - tgcattt
- - - - - - - - - - - - - - -tggtggt
- - - - - - - - - - - - - - - - - - agctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - -taccatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actggtg