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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTTAAGCAGTCAACAGGAGTACTTGAAGCTGAAGGCACGTTATGAGTCCCTACAACGGTCCCAGAGgtacggatgccctattgcgccttttaataatatggctcataattattggttgattctatatatcatcgaagtggttattgtatcccacaattccactgtt...

Basic information

species Glycine max
transcript GLYMA08G11120.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G11120.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv01s0010g03900.t01 (Vitis vinifera), 5'ss of exon 3
GAGTTAAGCAGTCAACAGGAGTACTTGAAGCTGAAGGCACGTTATGAGTCCCTACAACGGTCCCAGAGgtacggatgccctattgcgccttttaataatatggctcataa---ttatt-ggttgattctatatatcatcgaagtggttattgtatcccacaattccactgtt-----------
|||||||| ||||| ||||| || ||||| || || |||||||||||  |||||||||| |||||||||||     || | ||| |   |  |||   ||    |   ||   |||||    |||| | |     |  |    |  |||     ||  || |||  |||||            
GAGTTAAGTAGTCAGCAGGAATATTTGAAACTTAAAGCACGTTATGAAGCCCTACAACGATCCCAGAGgtaacccagctccattccatatcataactgtactcattgaaaaacttattcaaatgatacgaagcg-ctccacgataattaggacgtctaaccattggactgtgattgcatttag
















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|208102506|gb|GD900229.1|GD900229
EST:     GAGTACTTGAAGCTGAAGGCACGTTATGAGGCCCTACAACGGTCCCAGAG                         GAACCTTATGGG
genomic: GAGTACTTGAAGCTGAAGGCACGTTATGAGTCCCTACAACGGTCCCAGAGgtacggatgc ... accctcccagGAACCTTATGGG
EST: gi|207784105|gb|GD758415.1|GD758415
EST:     GAGTACTTGAAGCTGAAGGCACGTTATGAGGCCCTACAACGGTCCCNGAG                         GAACCTTATGGGAGAAGATCTTGGTCCTTTAAGC
genomic: GAGTACTTGAAGCTGAAGGCACGTTATGAGTCCCTACAACGGTCCCAGAGgtacggatgc ... accctcccagGAACCTTATGGGAGAAGATCTTGGCCCTTTAAGC
EST: gi|193534527|gb|FK492457.1|FK492457
EST:     CCCTACAACGGTCCCAGAG                         GAACCTTATGGGAGAAGATCTTGGCCCTTTAAGTCAGCAAAGAGCTGGAGT
genomic: CCCTACAACGGTCCCAGAGgtacggatgc ... accctcccagGAACCTTATGGGAGAAGATCTTGGCCCTTTAAG-CAGCAAAGAGCTGGAGT
EST: gi|208046011|gb|GD848189.1|GD848189
EST:     GAGTACTTGAAGCTGAAGGCACGTTATGAGGCCCTACAACGGTCCCAGAG                         GAACCTTATGGG
genomic: GAGTACTTGAAGCTGAAGGCACGTTATGAGTCCCTACAACGGTCCCAGAGgtacggatgc ... accctcccagGAACCTTATGGG
EST: gi|208218709|gb|GE017021.1|GE017021
EST:     GAGTACTTGAAGCTGAAGGCACGTTATGAGTCCCTACAACGGTCCCAGAG                         GAACCTTATGGGAGAAGATCTTGGCCCTTTAAGCAGCAAAGAGCTGGAGTC
genomic: GAGTACTTGAAGCTGAAGGCACGTTATGAGTCCCTACAACGGTCCCAGAGgtacggatgc ... accctcccagGAACCTTATGGGAGAAGATCTTGGCCCTTTAAGCAGCAAAGAGCTGGAGTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGTTAAGCAGTCAACAGGAGTACTTGAAGCTGAAGGCACGTTATGAGTCCCTACAACGGTCCCAGAGgtacggatgccctattgcgccttttaataatatggctcataattattggttgattctatatatcatcgaagtggttattgtatcccacaattccactgtt

- - - - - - - - - - - - TTGAAG
- - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - CTGAAG