Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgggcacgatgaagaatattgcatataaaattcagaattttctaacaatataagatccttgattgattcttctacatttgctgatctactatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGATGATGCTGCAGCACAATGGTGTAGAGATGTATTTGTCGCCAAG

Basic information

species Vitis vinifera
transcript Vv08s0007g08110.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g08110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G32420.1 (Glycine max), 3'ss of exon 8
--gtgggcacgatgaagaatattgcatataaaattcagaattttctaacaatataagatccttgattgattcttctacatttgctgatctactatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGATGATGCTGCAGCACAATGGTGTAGAGATGTATTTGTCGCCAAG
   ||   | | |||||   |||| ||       | |   |  | | |   | |||  |  |||| |   |       || || | || |    |    ||||||||||| || |||||||||||||| |||||||||||||| ||||||||||| ||||  || ||||||||| ||||| ||||||| ||||||
ttttgttgatgctgaaggg-attggatggctctattatgttaattttatgctttaatttgattgacttcatgaagaggatctg-taatatttccttccacagGTGCATGTTCATATCAAGAGGCATTTAATGAAGGAATTGCCAGAAACAGATGAGGCTGTTGCTCAATGGTGTCGAGATATATTTGTGGCCAAG

upper sequence: Vv08s0007g08110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G29600.1 (Glycine max), 3'ss of exon 8
--gtgggcacgatgaagaatattgcatataaaattcagaattttctaacaatataagatccttgattgattcttctacatttgctgatctactatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGATGATGCTGCAGCACAATGGTGTAGAGATGTATTTGTCGCCAAG
       | |          |   |  |      | |   ||   | |  || |||  |  |||| |   |       || || |||| | || ||   ||||||||||| || |||||||||||||||||||||||| |||| || |||||||| ||||  || ||||||||| ||||| ||||||| ||||||
cccccctcccttctcccttcaccaccaagctctattatgtttactttatgatttaattttgttgacttcatgaagaggatctg-tgatattctttcc-acagGTGCATGTTCATATCAAGAGGCATTTGATGAAGGAACTGCCAGATACAGATGAGGCTGTTGCTCAATGGTGTCGAGATATATTTGTGGCCAAG

upper sequence: Vv08s0007g08110.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G31320.1 (Glycine max), 3'ss of exon 8
--gtgggcacgatgaagaatattgcatataaaattcagaat-tttctaacaatataagat-ccttgattgattcttctacatttgctgatc-tactatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGATGATGCTGCAGCACAATGGTGTAGAGATGTATTTGTCGCCAAG
        | |||     || || | |  | |||   |  | ||| |  |  ||| | ||  |||| || ||      | | || || ||  ||| | |||  ||||||||||||| || ||| |||||  ||||||||| ||||| |||  |||||| ||||  || ||||||||| ||||||| ||||| || |||
catctaagaggattccttatctttctttcataatcttgggtgtttttttctttatgaaatgtcttgtttaatgaa---aaagttactcattgtaccacctt--agGTGCATGTGCATATTAAGCGGCATGCGATGAAGGATTTGCCAGAAGAAGATGAAGCTGTTGCTCAATGGTGTCGAGATGTGTTTGTGGCTAAG

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|110685332|gb|EE063631.1|EE063631
EST:     CTCAGCCTTCAACAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCA                         ATGCATGTGCACATCCAAGAG-CATTTGATG
genomic: CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATC-AAGAGGCATTTGATG
EST: gi|110695893|gb|EE074430.1|EE074430
EST:     CAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCA                         GTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
genomic: CAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
EST: gi|110410507|gb|EC976190.1|EC976190
EST:     CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCA                         GTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
genomic: CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
EST: gi|30252653|gb|CB970204.1|CB970204
EST:     CTCAGCCTTCACCAACAATGCTCAGACTNGATCAGGGGCAACCTTCTGCA                         GTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
genomic: CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
EST: gi|110703094|gb|EE079637.1|EE079637
EST:     CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCA                         GTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
genomic: CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
EST: gi|110688154|gb|EE066378.1|EE066378
EST:     CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCA                         GTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
genomic: CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
EST: gi|110696827|gb|EE073281.1|EE073281
EST:     CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCA                         GTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
genomic: CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
EST: gi|110730631|gb|EE107931.1|EE107931
EST:     CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCA                         GTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
genomic: CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
EST: gi|110373043|gb|EC937250.1|EC937250
EST:     CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCA                         GTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCTTGAAACAGAT
genomic: CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
EST: gi|110378825|gb|EC943977.1|EC943977
EST:     CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCA                         GTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
genomic: CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
EST: gi|110696361|gb|EE072411.1|EE072411
EST:     CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAAGG-CAACCTTCTGCA                         GTGCATGTGCACATCAA
genomic: CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATCAA
EST: gi|110708022|gb|EE085087.1|EE085087
EST:     CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCA                         GTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
genomic: CTCAGCCTTCACCAACAATGCTCAGACTCTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGAT
EST: gi|110388620|gb|EC953390.1|EC953390
EST:     CTTTAAGGGGCAACCTTCTGCA                         GTGCATGTTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGA
genomic: CTTTAAGGGGCAACCTTCTGCAgtaagccaac ... tatcttgcagGTGCATG-TGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaatataagatccttgattgattcttctacatttgctgatctactatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGATGATGCTGCAGCACAATGGTGTAGAGATGTATTTGTCGCCAAG
                                            ctatctt  CT-rich tract
     ataagat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggcacgatgaagaatattgcatataaaattcagaattttctaacaatataagatccttgattgattcttctacatttgctgatctactatcttgcagGTGCATGTGCACATCAAGAGGCATTTGATGAAGGAATTGCCTGAAACAGATGATGCTGCAGCACAATGGTGTAGAGATGTATTTGTCGCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- -ggcacga
- - - - - - aagaata
- - - - - - - - - - - - -ataaaat
- - - - - - - - - - - - - - - - - - - - - - aacaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgat