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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTAGGAAAACTTGTGAACCACTGGAGGAAGATTCCTTCAGGCCAATCCTTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatttttatcttgctgaatattggtcccatttgaaagaagatactaacatggttcagtgtttttatttttcctggtccactaaactctatccctttttgggtttatag

Basic information

species Glycine max
transcript GLYMA05G36700.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G36700.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv02s0025g01720.t01 (Vitis vinifera), 5'ss of exon 4
AACTAGGAAAACTTGTGAACCACTGGAGGAAGATTCCTTCAGGCCAATCCTTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatttttatcttgctgaatattggtcccatttgaaagaagatactaac---atggttcagtgtttttatttttcctggtccactaaactctatccctttttgggtttatag
 || |||||||  ||||| ||| |||| || ||||| ||||||||  |||| || |||||||| || ||||||||||| || |||||||||||||| ||||||    || |  ||    |  || ||   ||    | |  |||    | |||    | ||    |  || | || | |  || |   || || |  |                   
CACCAGGAAAATCTGTGAGCCAATGGAAGAGGATTCATTCAGGCCGGTCCTCCATCACTATGACGGCCCCAAGTTCCGCCTGGAGCTGAATGTGCCAGAGgtaa---atctcaattcaac--aagatcaatcaatctagggagatctcattaagggaacggcatcggattctgatgtgttttg-ttatctgaatttcacag----------------

upper sequence: GLYMA05G36700.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S168_104V6.2 (Physcomitrella patens), 5'ss of exon 5
AACTAGGAAAACTTGTGAACCACTGGAGGAAGATTCCTTCAGGCCAATCCTTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatttttatcttgctgaatattggtcccatttgaaagaagatactaacatg-gttcagtgtttttattt--ttcctggtccactaaactctatccctttttgggtttatag
 | | | ||    ||| | ||  | || || || || ||||||||| | || || ||||||||||| ||||||||||||||| ||||   ||| || |||||||  |||||   ||||    |  |  |   ||  ||     |      || | || |   || ||  | |||   ||     |  |  | | ||  |  |               
TATTCGAAAGCAGTGTAAGCCTTTAGAAGAGGACTCATTCAGGCCAGTGCTGCATCACTATGATGGGCCCAAGTTCCGTCTTCAGCTCTCTGTTCCAGAGgtatcatatttaactcttaaacacaaccg--tccgcttcgttcagctcggtatcttgtgcaaagagtaatgattgagttgaaaatttatgatagtcagtatc---------------
















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|17401179|gb|BM177961.1|BM177961
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|193396423|gb|FK362779.1|FK362779
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|193555470|gb|FK514347.1|FK514347
EST:     GTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: GTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|254324039|gb|GR840464.1|GR840464
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|193372274|gb|FK338291.1|FK338291
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTGCTGGATATTTTTGCAGAACAAGACACCTTCAGTGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|208045305|gb|GD841113.1|GD841113
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTGCTGGATATTTTTGCAGAACAAGACACCTTCAGTGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|192302668|gb|FG996348.1|FG996348
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTTTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|298192580|gb|HO033014.1|HO033014
EST:     CTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|254315467|gb|GR825276.1|GR825276
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|6454117|gb|AW184865.1|AW184865
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAT                         GCGTTGTCTCTTCTGGATATTGTTGCAGAA
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAA
EST: gi|254315468|gb|GR825277.1|GR825277
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|207759540|gb|GD733941.1|GD733941
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGGATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|298199163|gb|HO042526.1|HO042526
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|10254440|gb|BE822206.1|BE822206
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|16105888|gb|BI893628.1|BI893628
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|207765278|gb|GD737651.1|GD737651
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|193679652|gb|FK621542.1|FK621542
EST:     TATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: TATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|193439658|gb|FK405861.1|FK405861
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|208307726|gb|GE104954.1|GE104954
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|298194369|gb|HO041017.1|HO041017
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACAGCTTCAATGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|7796429|gb|AW781826.1|AW781826
EST:     TCACCACTATGATGGTCCCAAGTTCCGTCATCAGCCAGTATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
genomic: TCACCACTATGATGGTCCCAAGTTCCGTCTTGAG-CTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|193356327|gb|FK323040.1|FK323040
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|5760821|gb|AI966184.1|AI966184
EST:     TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
genomic: TTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT
EST: gi|193704170|gb|FK647042.1|FK647042
EST:     TATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAG                         GCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACACT
genomic: TATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatt ... gggtttatagGCGTTGTCTCTTCTGGATATTTTTGCAGAACAAGACACCTTCAATGACGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AACTAGGAAAACTTGTGAACCACTGGAGGAAGATTCCTTCAGGCCAATCCTTCACCACTATGATGGTCCCAAGTTCCGTCTTGAGCTGAATGTGCCCGAGgtattttatttttatcttgctgaatattggtcccatttgaaagaagatactaacatggttcagtgtttttatttttcctggtccactaaactctatccctttttgggtttatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA