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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTGTTGTACTCAAGGAGAGTGATGTATACCAGCTTAAACAAATCCTCAAAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAGgtataaatattctcattactttatatggaatctatatattagtgaaatattttaggtttttgcctttattttgtgtgtggtatgtaaacgtgtgtattgt...

Basic information

species Glycine max
transcript GLYMA01G02630.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G02630.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv00s0218g00090.t01 (Vitis vinifera), 5'ss of exon 5
TGCTGTTGTACTCAAGGAGAGTGATGTATACCAGCTTAAACAAATCCTCAAAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAGgtataaatattctcattactttatatggaatctatatattagtgaaatattttaggtttttgcctttattttgtgtgtggtatgtaaacgtgtgtattgt-
| | || ||||||||||||  ||||||||||||||||||||||||||||||  | ||| | ||||| || |||||| | || ||||| || |||||  |||||  ||  ||| ||||||    ||  |||| || ||  |   | ||  || |       |  | ||  |  |    |   || |   | ||  | |  | 
TTCGGTCGTACTCAAGGAGCTTGATGTATACCAGCTTAAACAAATCCTCAAGGACATACCTGATGCAGAATTTGTTGCACTGCATAACAACTTGGTCCAGgta-gaaccttcccattacaacttaaagaatttaaattgtgtagtaaatttatgatagcctttcattcctcggatgattaaatttctgcctgcttgtaatt
















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|22927553|gb|BU544692.1|BU544692
EST:     AAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAG                         GTTCAGAAACACTTCCAATGGAATTCGCCCCCAATCAGANNNGATGCTTTC
genomic: AAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAGgtataaatat ... gttttatcagGTTCAGAAACACTTCCAATGGAATTCGCCCCCAATCAGATTTGATGCTTTC
EST: gi|9983448|gb|BE657556.1|BE657556
EST:     AAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAG                         GTTCAGAAACACTTCCAATGGAATTCGCCCCCAATCAGATTTGATGCTTTC
genomic: AAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAGgtataaatat ... gttttatcagGTTCAGAAACACTTCCAATGGAATTCGCCCCCAATCAGATTTGATGCTTTC
EST: gi|254319655|gb|GR830787.1|GR830787
EST:     AAAATATATCACATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAG                         GTTCAGAAACACTTCCAATGGAATTCGCCCCCAATCAGATTTGATGCTTTC
genomic: AAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAGgtataaatat ... gttttatcagGTTCAGAAACACTTCCAATGGAATTCGCCCCCAATCAGATTTGATGCTTTC
EST: gi|17963174|gb|BM269926.1|BM269926
EST:     AAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAG                         GTTCAGAAACACTTCCAATGGAATTCGCCCCCAATCAGATTTGATGCTTTC
genomic: AAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAGgtataaatat ... gttttatcagGTTCAGAAACACTTCCAATGGAATTCGCCCCCAATCAGATTTGATGCTTTC
EST: gi|17963123|gb|BM269876.1|BM269876
EST:     AAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAG                         GTTCAGAAACACTTCCAATGGAATTCGCCCCCAATCAGATTTGATGCT
genomic: AAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAGgtataaatat ... gttttatcagGTTCAGAAACACTTCCAATGGAATTCGCCCCCAATCAGATTTGATGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTGTTGTACTCAAGGAGAGTGATGTATACCAGCTTAAACAAATCCTCAAAAATATATCAGATGCTGAGTTTGTTACCCTTCATAATAATTTGGTAAAGgtataaatattctcattactttatatggaatctatatattagtgaaatattttaggtttttgcctttattttgtgtgtggtatgtaaacgtgtgtattgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG