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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACATAGTGCGTTCGAGAAATGCAGCAGCACCTGATGCAGATGCAGCCCATGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttactttcttccttcatccattctccaacccttttctttcttcttcttcttcttcatattcacgcttctttcattctactttccttcgcgttcgt...

Basic information

species Glycine max
transcript GLYMA10G30650.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G30650.1 (Glycine max), 5'ss of exon 1
lower sequence: AT5G28640.1 (Arabidopsis thaliana), 5'ss of exon 1
-TACATAGTGCGTTCGAGAAATGCAGCAGCACCTGATGCAGATGCAGCCCATGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttactttcttccttcatcca--ttctccaacccttttctttcttcttcttcttcttcatatt-cacgcttctttcattctactttccttcgcgttcgt
 || | | |  |    ||||||||| ||||||||||||||||||||||||||||||||||  |||||||||| ||| || ||| ||||||| || |||||||| || | ||   |  | || | |   |||| |  |  || | ||   ||||  | || |   ||||  | | |||||| | |  |         | |     
ATATAAAATA-GCAAAAGAAATGCAACAGCACCTGATGCAGATGCAGCCCATGATGGCTGGTTACTACCCCAGCAATGTTACCTCTGATCATATCCAACAGgttctcttctccttctcctccttctccttcttcttctattatattatctctttcttttttctttattatatgtttctttgaattcataaaggaaagtgaa---

upper sequence: GLYMA10G30650.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv14s0081g00200.t01 (Vitis vinifera), 5'ss of exon 1
TACATAGTGCGTTCGAGAAATGCAGCAGCACCTGATGCAGATGCAGCCCATGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttactttcttccttcatccattctccaacccttttctttcttcttcttcttcttcatattcacgcttctttcattctactttccttcgcgttcgt
   |||  | |   ||||||||||||||||||||||||||||||||||||||||||| ||||| ||||||| |||||||||||||||||||||||| ||||| | |    |  |  ||   |   ||||||  | || |  ||| || ||    || ||       | | ||||||  | ||  ||| |      ||| |
GGGATATAGAGAGAGAGAAATGCAGCAGCACCTGATGCAGATGCAGCCCATGATGGCAGCCTATTACCCCAGCAACGTCACCACTGATCACATTCAGCAGgttcctcttctcttctctctctttcttctccttctctctcttttttttttgccttttttttgggggagggttctttgttcctgtttttccctttcttcct
















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|17023923|gb|BM094957.1|BM094957
EST:     TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
EST: gi|208239853|gb|GE038155.1|GE038155
EST:     CTGATCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: CTGATCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
EST: gi|208118718|gb|GD918359.1|GD918359
EST:     TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
EST: gi|7146715|gb|AW508637.1|AW508637
EST:     TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
EST: gi|298167597|gb|HO012860.1|HO012860
EST:     TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
EST: gi|298167848|gb|HO013111.1|HO013111
EST:     TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
EST: gi|298173919|gb|HO017255.1|HO017255
EST:     TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
EST: gi|24136599|gb|BU927109.1|BU927109
EST:     TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
EST: gi|7147015|gb|AW508937.1|AW508937
EST:     TCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: TCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
EST: gi|298185599|gb|HO030812.1|HO030812
EST:     TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
EST: gi|18040414|gb|BM308708.1|BM308708
EST:     TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: TGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
EST: gi|15812875|gb|BI785150.1|BI785150
EST:     AACAACGTCACCACTGATCACATTCAACAG                         TACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT
genomic: AACAACGTCACCACTGATCACATTCAACAGgtcctttact ... ttacatgcagTACCTGGATGAGAACAAGTCCTTGATTCTGAAGATTGTTGAAAGCCAGAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACATAGTGCGTTCGAGAAATGCAGCAGCACCTGATGCAGATGCAGCCCATGATGGCTGCCTACTACCCCAACAACGTCACCACTGATCACATTCAACAGgtcctttactttcttccttcatccattctccaacccttttctttcttcttcttcttcttcatattcacgcttctttcattctactttccttcgcgttcgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaaccc