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'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagatccaaattcaatttgagtttctcaatccagtaggaagatgatgactattctttgttcaacatcattccatcatattgaattaagcagatgcattcttgtcattctagGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTTGTTGCTGATGGTGGTGAATGCCTTGCTGCTCAGAGTTATGCCAAGAACA

Basic information

species Vitis vinifera
transcript Vv04s0008g03770.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g03770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g55540.1 (Oryza sativa), 3'ss of exon 7
----gtagatccaaattcaatttgagtttctcaatccagtaggaagatgatgactattctttgttcaacatcattccatcatattgaattaagcagatgcattcttgtcattctagGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTTGTTGCTGATGGTGGTGAATGCCTTGCTGCTCAGAGTTATGCCAAGAACA
    ||||    |||||| ||| |  ||| || || |   |      |    | ||  |||||         | | ||| ||  ||  |      | |    | |  |  ||| |||| ||||||||||| ||||| ||   |||||| || || || ||||||||||||||||||||||||||||  ||    |||||||| || || |||||||
ttctgtagccgtaaattccattggtttttgtccatacgacattttatttcaaaatagactttg---------acttcattattgtgcct------gctatgctttatttgttc-agGGATTTGCAAGTGGAAGTCTTGACCAAGATGCTCAATCAGTGCGCATGTTTGTTGCTGATGGTGGTGAATTGCTCATGGCTCAGAGCTACGCTAAGAACA

upper sequence: Vv04s0008g03770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G094712_T04 (Zea mays), 3'ss of exon 5
gtagatccaaattcaatttgagtttctcaatccagtaggaagatgatgactattctttgttcaa--catcattccatcatattgaattaa-gcagatgcattcttgtcattct---agGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTTGTTGCTGATGGTGGTGAATGCCTTGCTGCTCAGAGTTATGCCAAGAACA
                     || |    ||   | ||    |   |||||   | |||   ||  ||    |  ||| |||  | | |      |    || |||| |  ||   |||| ||||||||||| ||||| ||   |||||| ||||| || || ||||||||||||||||||||||||   ||    |||||||| || || |||||||
---------------------gtatgcagatgt-gcagagcaaaagtgacttgacattgcaaaaaacacatctggatcctatacactcatcattcacatttttttgttaacctgacagGGCTTTGCAAGTGGAAGTCTTGACAAAGATGCTCAGTCAGTGCGTATGTTTGTTGCTGATGGTGGTGAACTTCTCATGGCTCAGAGCTACGCTAAGAACA
















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|110399226|gb|EC965723.1|EC965723
EST:     AGTTGATAAGATTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAG                         GGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTT
genomic: AGTTGATAAGATTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAGgtagatccaa ... gtcattctagGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTT
EST: gi|110404843|gb|EC970367.1|EC970367
EST:     AGTTGATAAGATTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAG                         GGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTT
genomic: AGTTGATAAGATTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAGgtagatccaa ... gtcattctagGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTT
EST: gi|161716869|gb|FC068115.1|FC068115
EST:     AGTTGATAAGATCGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAG                         GGTTTTGCAAGTGGGAGTCTGGATGCAGATGCACAGTCTGTTCGCATGTTT
genomic: AGTTGATAAGATTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAGgtagatccaa ... gtcattctagGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTT
EST: gi|110698493|gb|EE076055.1|EE076055
EST:     GTTGATAAGAATTGAA-GGGTTGTTACCTTTCTTTGACAGTGCTTACCAG                         GGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTT
genomic: GTTGATAAGA-TTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAGgtagatccaa ... gtcattctagGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTT
EST: gi|110368860|gb|EC932986.1|EC932986
EST:     AGTTGATAAGATTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAG                         GGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTT
genomic: AGTTGATAAGATTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAGgtagatccaa ... gtcattctagGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTT
EST: gi|110711178|gb|EE087421.1|EE087421
EST:     GTTGATAAGATTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTAACAAG                         GGTTT-GCAAGT
genomic: GTTGATAAGATTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCA-Ggtagatccaa ... gtcattctagGGTTTTGCAAGT
EST: gi|110372200|gb|EC936351.1|EC936351
EST:     AGTTGATAAGATCGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAG                         GGTTTTGCAAGTGGGAGTCTGGATGCAGATGCACAGTCTGTTCGCATGTTT
genomic: AGTTGATAAGATTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAGgtagatccaa ... gtcattctagGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTT
EST: gi|33402572|gb|CF208199.1|CF208199
EST:     AGTTGATAAGATCGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAG                         GGTTTTGCAAGTGGGAGTCTGGATGCAGATGCACAGTCTGTTCGCATGTTT
genomic: AGTTGATAAGATTGAAAGGGTTGTTACCTTTCTTTGACAGTGCTTACCAGgtagatccaa ... gtcattctagGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttcaacatcattccatcatattgaattaagcagatgcattcttgtcattctagGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTTGTTGCTGATGGTGGTGAATGCCTTGCTGCTCAGAGTTATGCCAAGAACA
                                        ttcttgtc  CT-rich tract
                atcatattgaattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagatccaaattcaatttgagtttctcaatccagtaggaagatgatgactattctttgttcaacatcattccatcatattgaattaagcagatgcattcttgtcattctagGGTTTTGCAAGTGGGAGTCTGGATGCAGATGCGCAGTCTGTTCGCATGTTTGTTGCTGATGGTGGTGAATGCCTTGCTGCTCAGAGTTATGCCAAGAACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC