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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCACTGGGATGGGCTATTGACACACATTTTGGTTCTTTTGAAGCATTAATACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtgcaaattctaagtttcctagcatatcttctatccttgcatatcattagagcttaatgtcttgggcgttatttgaaatgcactttttctttttacctaatttgtactgctttgccag

Basic information

species Glycine max
transcript GLYMA06G14960.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G14960.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0067g02990.t01 (Vitis vinifera), 5'ss of exon 3
TTCACTGGGATGGGCTATTGACACACATTTTGGTTCTTTTGAAGCATTAATACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtgcaaattctaagtttcctagcatatcttctatccttgcatatcattagagctta--atgtcttgggcgttatttgaaatgca--ctttttctttttacctaatttgtactgctttgccag
||||||||| |||||||| |||||||||||||||||  | ||||||||  ||  |||| ||||  |||||||||||||  ||||||| ||||||||||| || |||  ||||  || | |   |  | |||| | |||| ||||||    |  || |   |||  ||||||  |   | | |   | |||   |||||    ||| | ||  ||| |            
TTCACTGGGTTGGGCTATAGACACACATTTTGGTTCCATGGAAGCATTGGTAGCAAAAATTAATTCAGAAGGTGCTGCTGTACAGGGCTCTGGATGGGTTgtaagtgttgcagcttattaaagttttggcatcttttctttccttg----ttgttggcaattaggatgtctcagcaatcaatatgactgcttccttttcacattttcttatcttgcag-----------
















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|17022337|gb|BM093371.1|BM093371
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|254320557|gb|GR827006.1|GR827006
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|16348832|gb|BI974427.1|BI974427
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|31306339|gb|CD391542.1|CD391542
EST:     GAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: GAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|19935063|gb|BQ080093.1|BQ080093
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|213597364|gb|DB962098.1|DB962098
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|58018298|gb|CX705040.1|CX705040
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|16276939|gb|BI942120.1|BI942120
EST:     TACACAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|6719532|gb|AW307179.1|AW307179
EST:     TACANAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACANAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|254320556|gb|GR827005.1|GR827005
EST:     TACAAAAAGTTAACGCAGAAAGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAG-CTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|16346801|gb|BI972396.1|BI972396
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGGTGAAGAAGCTTGTAGTTGAA
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAA
EST: gi|254343194|gb|GR859356.1|GR859356
EST:     GCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: GCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|213614908|gb|DB957002.1|DB957002
EST:     ACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTNCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: ACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGT-CTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|209718433|gb|BW666245.1|BW666245
EST:     ACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: ACAAAAAGTTAACGCAGAAGGTGCTGCACTACA-GGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|14999950|gb|BI320764.1|BI320764
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|213598309|gb|DB979901.1|DB979901
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|58021102|gb|CX707844.1|CX707844
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|151397983|gb|EV267856.1|EV267856
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|15589944|gb|BI674560.1|BI674560
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|16278828|gb|BI943116.1|BI943116
EST:     TACAAAAAGTTAATGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|16278070|gb|BI942710.1|BI942710
EST:     TACAAAAAGTTAATGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|23728745|gb|BU762433.1|BU762433
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|23734076|gb|BU765256.1|BU765256
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|31310328|gb|CD395531.1|CD395531
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|15000638|gb|BI321452.1|BI321452
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|16276941|gb|BI942121.1|BI942121
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|208046523|gb|GD844291.1|GD844291
EST:     GGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: GGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|209718432|gb|BW666244.1|BW666244
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|58017804|gb|CX704546.1|CX704546
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
EST: gi|19346087|gb|BM890967.1|BM890967
EST:     TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACC
EST: gi|31470286|gb|CD412254.1|CD412254
EST:     TACAAAAAGTGAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTG                         TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC
genomic: TACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtg ... gctttgccagTGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCACTGGGATGGGCTATTGACACACATTTTGGTTCTTTTGAAGCATTAATACAAAAAGTTAACGCAGAAGGTGCTGCACTACAGGGGTCTGGATGGGTGgtgagttgtgcaaattctaagtttcctagcatatcttctatccttgcatatcattagagcttaatgtcttgggcgttatttgaaatgcactttttctttttacctaatttgtactgctttgccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC