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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatcctatttaaatcataacttttttttttttttttttttgtcatttcagcagtaagtcctgctgcctaagggtaagggtttctgttatttttc...

Basic information

species Vitis vinifera
transcript Vv01s0127g00720.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0127g00720.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA01G03720.2 (Glycine max), 5'ss of exon 6
GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatcctatttaaatcataacttttttttttttttttt-tttgtcatttcagcagtaagtcctgctgcctaagggtaagggtttctgttatttttc--
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GAAAAATCCTTATCTATATGGTGAGCTTGCCAAAGGCCAGAGCCCAAAGgtaagccatgttattagtttcataatcactagctagttacttaattagttttcttaattcctaatt-tgc--cctttgggtttgggcacatggaccttgctgg
















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|110384872|gb|EC949339.1|EC949339
EST:     GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAG                         TTTATGGTGTTCGCCTGCTCAGAC
genomic: GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatc ... ttatgtgcagTTTATGGTGTTCGCCTGCTCAGAC
EST: gi|34547687|gb|CF515919.1|CF515919
EST:     GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAG                         TTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
genomic: GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatc ... ttatgtgcagTTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
EST: gi|110378531|gb|EC943668.1|EC943668
EST:     TTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAG                         TTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
genomic: TTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatc ... ttatgtgcagTTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
EST: gi|110410367|gb|EC976048.1|EC976048
EST:     GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAG                         TTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
genomic: GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatc ... ttatgtgcagTTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
EST: gi|110367537|gb|EC931474.1|EC931474
EST:     GTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAG                         TTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
genomic: GTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatc ... ttatgtgcagTTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
EST: gi|34548812|gb|CF517044.1|CF517044
EST:     GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAG                         TTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
genomic: GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatc ... ttatgtgcagTTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
EST: gi|225387936|gb|GO307567.1|GO307567
EST:     ACGACGAGCTTGCCAAAGGCCAGAGCCCCAAG                         TTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
genomic: ACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatc ... ttatgtgcagTTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
EST: gi|71859278|gb|DT008333.1|DT008333
EST:     GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAG                         TTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
genomic: GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatc ... ttatgtgcagTTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
EST: gi|161715637|gb|FC066795.1|FC066795
EST:     GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAG                         TTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
genomic: GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatc ... ttatgtgcagTTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
EST: gi|30128124|gb|CB913463.1|CB913463
EST:     GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAG                         TTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG
genomic: GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatc ... ttatgtgcagTTTATGGTGTTCGCCTGCTCAGACTCTCGAGTTTGCCCTTCACATATCCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGAATCCTACTTTGTACGACGAGCTTGCCAAAGGCCAGAGCCCCAAGgtgagaaatcctatttaaatcataacttttttttttttttttttttgtcatttcagcagtaagtcctgctgcctaagggtaagggtttctgttatttttc

- - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agggtaa