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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATTCACCACATTCCTGGCCCCGAGGGTGTCCGAGGTCGTAATTCAGACAATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatatcatgaattgggcgaacattatcttatttccactctatataatttgttccatgctcatattaagttctgtggaacagtcatagcttatagg...

Basic information

species Glycine max
transcript GLYMA20G36740.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36740.3 (Glycine max), 5'ss of exon 5
lower sequence: AT5G28840.1 (Arabidopsis thaliana), 5'ss of exon 6
TATTCACCACATTCCTGGCCCCGAGGGTGTCCGAGGTCGTAATTCAGACAATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatatcatgaattgggcgaacattatcttatttccactctatataatttgttccatgctcatattaagttctgtggaacagtcatagcttatagg
 |||||||||||||||||||| || ||||| || |||||||| |||||||| |  || || |||||||| |||||||||||||| | |||||| |||||||||  || || ||  | |     | |   |    |     |    || |||||  ||   | || |||||  ||| ||    ||  | || | | |   |
AATTCACCACATTCCTGGCCCGGAAGGTGTTCGTGGTCGTAACTCAGACAACAATCTGATCAAAGAAAAGCTTGGTTGGGCTCCTAATATGAGATTGAAGgtaccaacattatttacttaagtagctcaaagacaagataata--atctaattcttttattactgatatt--gttttg----accataatcgttaaacag
















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|254317428|gb|GR826373.1|GR826373
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|6482608|gb|AW201853.1|AW201853
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|31467396|gb|CD409424.1|CD409424
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAAGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|192309346|gb|FK000554.1|FK000554
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|17964388|gb|BM271124.1|BM271124
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|27445968|gb|CA953091.1|CA953091
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|31464858|gb|CD406871.1|CD406871
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAAGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|58016749|gb|CX703491.1|CX703491
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|33389464|gb|CA852671.1|CA852671
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAAGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|58020306|gb|CX707048.1|CX707048
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|192309347|gb|FK000555.1|FK000555
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTTTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|13789611|gb|BG652202.1|BG652202
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|192302108|gb|FG995228.1|FG995228
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|254317427|gb|GR826372.1|GR826372
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAG-TTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAG-AGCAGATCGAGAAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAG
EST: gi|209703623|gb|BW656579.1|BW656579
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|209716887|gb|BW665486.1|BW665486
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|9260013|gb|BE348160.1|BE348160
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|9983774|gb|BE657882.1|BE657882
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
EST: gi|6913727|gb|AW395257.1|AW395257
EST:     ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAG                         GATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG
genomic: ATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatat ... gatgttgtagGATGGACTGAGGATCACATACTTCTGGATTAAGGAGCAGATCGAGAAGGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATTCACCACATTCCTGGCCCCGAGGGTGTCCGAGGTCGTAATTCAGACAATACACTTATAAAAGAAAAACTTGGTTGGGCTCCAACTATGAGGTTGAAGgtaataatatcatgaattgggcgaacattatcttatttccactctatataatttgttccatgctcatattaagttctgtggaacagtcatagcttatagg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG