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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgatctatctagggccaaactttttgttatatcttgggtcattaatcttgatatcaatttctcaatgcaactttttttatgccaatttatttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTCTATGTCACTAATTTCATATCGTGATTTAGTGGGTGTGGCATATACAGAA

Basic information

species Vitis vinifera
transcript Vv14s0171g00330.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G22530.2 (Glycine max), 3'ss of exon 3
tttgatctatctagggccaaactttttgttatatcttgggtcattaatcttgatatcaatttctcaatgcaacttttt---ttatgccaatttatttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTCTATGTCACTAATTTCATATCGTGATTTAGTGGGTGTGGCATATACAGAA
    | |    || || |||| |  || || | | ||   | | |  | |  |  |   | |   |||  |  | ||    |||    | |||   |||||||||||||||||||||| || ||||| ||| |||||||||| || || |||||||||||  | || ||||| |||||||| || ||||| || |||||||||
--ccaccatcatatggtcaaattaatt-ttgttttttacatgaatgctatataactatttatactaattgaggtcttacagttaactgattttgaatgagcagGATTCGTCGTGGTCATCAAGTTTATCAAGAAGTCTGTGCTTCTTGTCATTCTATGTCTTTGATATCATACCGTGATTTGGTTGGTGTTGCTTATACAGAA

upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G07020.1 (Glycine max), 3'ss of exon 3
tttgatctatctagggccaaactttttgttatatcttgggtcattaatcttgatatcaatttctcaatgcaacttttt---ttatgccaatttatttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTCTATGTCACTAATTTCATATCGTGATTTAGTGGGTGTGGCATATACAGAA
    | |    ||    |||| |  ||||| | | ||   | | |  | |  |  |   | |   |||  |  | ||    |||  | | |||   | |||||||||||||||||||| || ||||| ||| |||||||||| || || |||||||||||  | || ||||| |||||||| || ||||| || |||||||||
--ccaccctcatatt-tcaaattaattgtttttttttacatgaatgctatataactatttatactaattgaggtcttacagttaaccaattttgaataagcagGATTCGTCGTGGTCATCAAGTTTATCAAGAAGTCTGTGCTTCTTGTCATTCTATGTCTTTGATATCATACCGTGATTTGGTTGGTGTTGCTTATACAGAA

upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G06700.1 (Glycine max), 3'ss of exon 4
-----tttgatctatctagggccaaactttttgttatatcttgggtca--ttaatcttgatatcaatttctcaatgcaactttttttatgccaatttatttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTCTATGTCACTAATTTCATATCGTGATTTAGTGGGTGTGGCATATACAGAA
       || |||        |     |||     |||| |   || |  || || || ||||||||| || |||||      ||| |    | |||   || ||||||||||||||||||| || |||||   | |||||||||| |||||||||||||||||  | || || ||||||||||| || ||||| || |||||||||
gaatacatgttctgctgctatcatgtatttaaaccatatttcacgttaagtttatattaatatcaatt-cttaatgc------tttcaattaatttttcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTCTATGTCTTTGATATCGTATCGTGATTTGGTTGGTGTTGCTTATACAGAA

upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 3
tttgatc--tatctagggccaaactttttgttatatcttgggtcattaatcttgatatcaatttctcaatgcaactttttttatgccaatttatttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTCTATGTCACTAATTTCATATCGTGATTTAGTGGGTGTGGCATATACAGAA
||| | |  ||| |      ||  || |  |  |||||    |  |||||  | ||       |   | |   | |  ||| |    | |||   || ||||||||||||||||||| || |||||   | |||||||||| |||||||||||||||||  | || || ||||||||||| || ||||| || |||||||||
tttaaaccatatttcacattaaggttatattagtatctataat--ttaataataattaacgccttaaattcttaatgctttcaattaatttttcatgggcagGATTCGTCGTGGTCATCAAGTTTATACAGAAGTCTGTGCTTCCTGCCATTCTATGTCTTTGATATCGTATCGTGATTTGGTTGGTGTTGCTTATACAGAA

upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G40810.2 (Arabidopsis thaliana), 3'ss of exon 2
tttgatctatctagggccaaactttttgttatatc----ttgggtcattaatcttgatatcaatttctcaatgcaactttttttatgccaatttatttg-----agcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTCTATGTCACTAATTTCATATCGTGATTTAGTGGGTGTGGCATATACAGAA
  |||    || ||   |||     |  | |||      |||   || |||  |||| |   |        ||  |||  |||  || |  || |||||     |||||||| |||||||||||||| ||||| || ||||| ||||| || |||||||| ||||| || || ||||| || || || |||||||| || || ||||| 
-gtgagtgttcaagctacaattcaatcatcatagtgaaattgcaacactaaagttgaaaattagagaaatttgagactgctttactgacggttgatttgtaatgagcagGATCCGTCGTGGTCACCAAGTTTATCAGCAAGTTTGTGCGTCTTGCCATTCGATGTCTCTGATCTCATACCGAGACTTGGTGGGTGTTGCCTACACAGAG

upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G27240.1 (Arabidopsis thaliana), 3'ss of exon 3
tttgatctatctagggccaaactttttgttata-tcttgggtcattaatcttgatatcaatttct-caatgca---actttttttatgccaat-ttatttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTCTATGTCACTAATTTCATATCGTGATTTAGTGGGTGTGGCATATACAGAA
        |   || | | | | |  |    || | || |    | || ||| |    ||||| |  | || |   | | ||   | |   || || | |||||||||| |||||||| || || ||||| || |||||||||||||| |||||||| ||||| || || ||||| || || || |||||||| || || ||||| 
------aaagaaagtgactatcctgctaccctaatattagactgtgaaacttcagtgaaatttttgtactgtatgaattattgaaaggttgatgttgtatgagcagGATCCGTCGTGGGCATCAAGTTTATCAGCAAGTCTGTGCATCATGCCATTCAATGTCTCTGATCTCATACCGAGACTTGGTGGGTGTCGCCTACACAGAG

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|294966487|gb|GW837622.1|GW837622
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|34319021|gb|CF371775.1|CF371775
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|161720747|gb|FC069966.1|FC069966
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|349823939|gb|FQ417326.1|FQ417326
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGACACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|71857128|gb|DT006183.1|DT006183
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|110381663|gb|EC935060.1|EC935060
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|349807741|gb|FQ402132.1|FQ402132
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCATCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|33405585|gb|CF211212.1|CF211212
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|71856777|gb|DT005832.1|DT005832
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|77585756|gb|DV221974.1|DV221974
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|110693499|gb|EE069785.1|EE069785
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|71860914|gb|DT009969.1|DT009969
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|349820893|gb|FQ408601.1|FQ408601
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|349807532|gb|FQ401947.1|FQ401947
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCATCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|110699690|gb|EE076907.1|EE076907
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|71876529|gb|DT025584.1|DT025584
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|349811881|gb|FQ410678.1|FQ410678
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTACATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|37189836|gb|CF609185.1|CF609185
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|349809818|gb|FQ398443.1|FQ398443
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|161713380|gb|FC062785.1|FC062785
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|22008847|gb|BQ793881.1|BQ793881
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|71857556|gb|DT006611.1|DT006611
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|71860746|gb|DT009801.1|DT009801
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|349819860|gb|FQ404536.1|FQ404536
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|161712482|gb|FC061787.1|FC061787
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|37188441|gb|CF607790.1|CF607790
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
EST: gi|110690784|gb|EE068257.1|EE068257
EST:     AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTC                         GATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC
genomic: AACTATCCCTGGCCTCACTCAGGCATTCTCAGTTCATATGACCATGCTTCgtgagtgtct ... atttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcttgatatcaatttctcaatgcaactttttttatgccaatttatttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTCTATGTCACTAATTTCATATCGTGATTTAGTGGGTGTGGCATATACAGAA
                                          tttattt  CT-rich tract
                            tttttttatgccaatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgatctatctagggccaaactttttgttatatcttgggtcattaatcttgatatcaatttctcaatgcaactttttttatgccaatttatttgagcagGATTCGTCGTGGTCACCAGGTTTACCAACAAGTCTGTGCATCCTGCCATTCTATGTCACTAATTTCATATCGTGATTTAGTGGGTGTGGCATATACAGAA

- - - - - - - - ccaaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caatgca