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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacctgttccaccttccattgcccctcccccgtttccatatgatgccaggaggctacatagatcagcaatagcatattaaaaaaaatgttagta...

Basic information

species Glycine max
transcript GLYMA06G14960.1
intron # 4
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 4
lower sequence: Vv13s0067g02990.t01 (Vitis vinifera), 5'ss of exon 4
TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacctgttccaccttccattgcccctccc--ccgtttccatatgatgccaggaggctacatagatcagcaatagcatattaaaaaaaatgttagta
|||||||||||||||||||| ||||||| ||| || |||||||| ||||| || |||||||| |   |  ||||   |   ||       |   |  ||      | ||      |  |||    | | | |   |    |||   ||| |||| | | 
TGGCTTGGTCTGGACAAAGATTTGAAGAAGCTGGTGGTTGAAACTACTGCAAATCAGgtaaattttttaatccaatatttgttatttgggcgagctattctttatttataagtcaacactattctggtaatctcaattgaattgctaaacatgt-act-
















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:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTG
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTG
EST: gi|254320557|gb|GR827006.1|GR827006
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|16348832|gb|BI974427.1|BI974427
EST:     TCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCNAG                         -ACCCACTGGTTACTAAGGGA
genomic: TCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACC-AGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGA
EST: gi|31306339|gb|CD391542.1|CD391542
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|19935063|gb|BQ080093.1|BQ080093
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGA
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGA
EST: gi|213597364|gb|DB962098.1|DB962098
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|58018298|gb|CX705040.1|CX705040
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|16276939|gb|BI942120.1|BI942120
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|6719532|gb|AW307179.1|AW307179
EST:     GTCTGGACANAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAAATTTG-TTCCATTGATTGGTATTGA
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAA-TTTGGTTCCATTGATTGGTATTGA
EST: gi|254343194|gb|GR859356.1|GR859356
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|213614908|gb|DB957002.1|DB957002
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGGTATTGA
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGG-TATTGA
EST: gi|209718433|gb|BW666245.1|BW666245
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|14999950|gb|BI320764.1|BI320764
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|213598309|gb|DB979901.1|DB979901
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|58021102|gb|CX707844.1|CX707844
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|151397983|gb|EV267856.1|EV267856
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAGCCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|15589944|gb|BI674560.1|BI674560
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|16278828|gb|BI943116.1|BI943116
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|16278070|gb|BI942710.1|BI942710
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTCCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|23728745|gb|BU762433.1|BU762433
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGAC
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGAC
EST: gi|23734076|gb|BU765256.1|BU765256
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|31310328|gb|CD395531.1|CD395531
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|16276941|gb|BI942121.1|BI942121
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|208046523|gb|GD844291.1|GD844291
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGCTTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|209718432|gb|BW666244.1|BW666244
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|58017804|gb|CX704546.1|CX704546
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
EST: gi|31470286|gb|CD412254.1|CD412254
EST:     GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAG                         GACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT
genomic: GTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacc ... ttatttgcagGACCCACTGGTTACTAAGGGACCAAATTTGGTTCCATTGATTGGTATTGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGCTTGGTCTGGACAAAGAGTTGAAGAGGCTTGTAGTTGAAACCACTGCCAACCAGgtaaactacctgttccaccttccattgcccctcccccgtttccatatgatgccaggaggctacatagatcagcaatagcatattaaaaaaaatgttagta

- - - - - - - - - -  TTGAAG
- - - - - - - - - - - TGAAGA
- - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctccccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaaa