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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATACTGGCTTTCCTTTGACAGAGAGAGATCGACTTGGGCTGCGAGGTCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactccatatctcttgttctgaaattcttagataatatattttcttgactaatataattatgtttatggtgaatgtaaagcccaactctgcttcaa...

Basic information

species Vitis vinifera
transcript Vv15s0046g03670.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA09G39870.1 (Glycine max), 5'ss of exon 2
GATACTGGCTTTCCTTTGACAGAGAGAGATCGACTTGGGCTGCGAGGTCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactccatatctcttgttctgaaatt---cttagataatatattttcttgactaatataattatgtttatggt--gaatgtaaagcccaactctgcttcaa------------------------------------------------------
|||||||| |||||||| || || || |||||| | ||||| || || ||||| ||||||||||| || |||||||||||||| |||| ||| || ||||||  |  | | ||    || ||| | |    ||| ||  | |   ||||     | |||   | ||   ||  |  || |||    |     |  ||||||                                                       
GATACTGGGTTTCCTTTAACTGAAAGGGATCGATTGGGGCTTCGGGGCCTCCTTCCTCCTCGTGTCATTTCATTTGAGCATCAATATGATCGGTTTAgtaag-ttttaaacctaaccttttgatactatatttatatgttgttcattctcagtaattattgct-tgcccatctttagactgtgctactgtgtttggcttcatgtttgttccttctttggtaatgtttcatagctgtaatatattattatttttcag

upper sequence: Vv15s0046g03670.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA18G46340.1 (Glycine max), 5'ss of exon 2
-GATACTGGCTTTCCTTTGACAGAGAGAGATCGACTTGGGCTGCGAGGTCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagact----ccatatctcttgttctgaaattcttagataatatattttct-tgactaata--taattatgtttatggtg--aatgta---aagcccaactctgcttcaa------------------------------------------
 |||||||| |||||||| || || || |||||| | ||||| || || || || ||||||||||| || || ||||||||||| |||| ||| || ||||||  |    ||  | || ||| |   | || | ||  |  |  | ||||  | | || |   |     | ||||   ||  | |||         ||  | || | |                                            
GGATACTGGGTTTCCTTTAACTGAAAGGGATCGATTGGGGCTTCGGGGCCTGCTTCCTCCTCGTGTCATTTCGTTTGAGCATCAATATGATCGGTTTagtaagttttaaacctaaccttttgatgctatatacatatgttgttcagtttcagtaattattggttggccgtctttagactgttagtgtgtttggcttcatgtttgttccttctttggtaatatttcatagctgtaatatattattatttttca
















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|110711032|gb|EE087769.1|EE087769
EST:     TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCA                         TGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
genomic: TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactcc ... tgaatgttagTGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
EST: gi|110685703|gb|EE062665.1|EE062665
EST:     TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCA                         TGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
genomic: TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactcc ... tgaatgttagTGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
EST: gi|110711784|gb|EE088657.1|EE088657
EST:     TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCA                         TGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
genomic: TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactcc ... tgaatgttagTGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
EST: gi|110710958|gb|EE087607.1|EE087607
EST:     TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCA                         TGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
genomic: TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactcc ... tgaatgttagTGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
EST: gi|110698263|gb|EE075598.1|EE075598
EST:     CTCCTCCCTTCTCCTGTTATCTCATTTGAGCATCAGTATGCTCGATTCA                         TGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
genomic: CTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactcc ... tgaatgttagTGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
EST: gi|110711356|gb|EE087746.1|EE087746
EST:     TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCA                         TGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
genomic: TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactcc ... tgaatgttagTGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
EST: gi|110699671|gb|EE076873.1|EE076873
EST:     TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCA                         TGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
genomic: TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactcc ... tgaatgttagTGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
EST: gi|110719431|gb|EE094555.1|EE094555
EST:     TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCA                         TGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
genomic: TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactcc ... tgaatgttagTGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
EST: gi|110712870|gb|EE088292.1|EE088292
EST:     TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCA                         TGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG
genomic: TCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactcc ... tgaatgttagTGGAGTCATATCGGTCATTGGAGAAAAATACTCTGGGCCAACCAGATAGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATACTGGCTTTCCTTTGACAGAGAGAGATCGACTTGGGCTGCGAGGTCTCCTCCCTCCTCGTGTTATCTCATTTGAGCATCAGTATGCTCGATTCAgtaagactccatatctcttgttctgaaattcttagataatatattttcttgactaatataattatgtttatggtgaatgtaaagcccaactctgcttcaa

- - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgtaaa