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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGTTAGAAGTTGTAGTTCGACTTCGTGAAAAAGCATCATGAGCCGCTACGACAGCCGCTCCGGCGACCCAACTTCCTATCGTGACCGGAGGAGgtaaccgccacttccgctttattatcaaccctatttttctgtaaacagtcatacatgccccttttttgttctaattctatttgtttcattattcttaatc...

Basic information

species Glycine max
transcript GLYMA07G01260.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G01260.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv09s0002g02100.t01 (Vitis vinifera), 5'ss of exon 1
GCAGTTAGAAGTTGTAGTTCGACTTCGTGAAAAAGCATCATGAGCCGCTACGACAGCCGCTCCGGCGACCCAACTTCCTATCGTGACCGGAGGAGgtaaccgccacttccgctttattatcaaccctatttttctgtaaacagtcatacatgcc--ccttttttgttctaattctatttgtttcattattcttaatc-
           |    | |  | | |  | | |  ||| ||||||||||||||  | ||||||||||||||   ||| || |||||||||||||||||||| || || || ||   |  ||      |||||  | |  |   ||||    | |  ||        || |||| | |||  ||||    || |  |  
-----------TCACCGCT-AAGTGCACGCACA--CATAATGAGCCGCTACGATGGTCGCTCCGGCGACCCCGGTTCGTACCGTGACCGGAGGAGgtaacc-cctctccctctccctc-tccctttcattttcattttcattttcatttcagtcgaccaaaaaaaatcgaattttgtttcgttcac-gctcctgtttg
















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|209699629|gb|BW655721.1|BW655721
EST:     CGCTACGACAGCCGCTCCGGCGACCCAACTTCCTATCGTGACCGGAGGAG                         CGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAACTTCCTATCGTGACCGGAGGAGgtaaccgcca ... tgtttgttagCGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
EST: gi|10709520|gb|BF009244.1|BF009244
EST:     CGCTACGACAGCCGCTCCGGCGACCCAACTTCCTATCGTGACCGGAGGAG                         CGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAACTTCCTATCGTGACCGGAGGAGgtaaccgcca ... tgtttgttagCGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
EST: gi|209720525|gb|BW675024.1|BW675024
EST:     CGCTACGACAGCCGCTCCGGCGACCCAACTTCCTATCGTGACCGGAGGAG                         CGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAACTTCCTATCGTGACCGGAGGAGgtaaccgcca ... tgtttgttagCGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
EST: gi|13479970|gb|BG509313.1|BG509313
EST:     CGCTACGACAGCCGCTCCGGCGACCCAACTTCCTATCGTGACCGGAGGAG                         CGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC
genomic: CGCTACGACAGCCGCTCCGGCGACCCAACTTCCTATCGTGACCGGAGGAGgtaaccgcca ... tgtttgttagCGATTCTGGGCTAGGTGCACCTACAGGGTTTGGTGGTTCTGTACAACACTC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCAGTTAGAAGTTGTAGTTCGACTTCGTGAAAAAGCATCATGAGCCGCTACGACAGCCGCTCCGGCGACCCAACTTCCTATCGTGACCGGAGGAGgtaaccgccacttccgctttattatcaaccctatttttctgtaaacagtcatacatgccccttttttgttctaattctatttgtttcattattcttaatc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccccttt