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'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtcttcttcttttctcgcagtgcaagtggaatgatgatgtatcatgcatatttactatgtaacttttaatggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGTCTGTGCCCTGGGCTCAACACAGTCATCAGGGAAATTGTGTGTGGCCTTT

Basic information

species Vitis vinifera
transcript Vv04s0008g00520.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 3'ss of exon 4
gtacgtcttcttcttttctcgcagt---gcaagtggaatgatgatgtatcatgcatatttactatgtaacttttaatggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGTCTGTGCCCTGGGCTCAACACAGTCATCAGGGAAATTGTGTGTGGCCTTT
|||  |    || | |||    | |    ||| |    ||   |   |  || | | ||| ||   |   | ||| |  || |||||||| |||||| || ||||| || || ||||| ||||| |||||||| || ||||||||||| || ||||| ||||| ||||||||||| |||||| | |
gtatataacattgtattcatatactaacacaaataagttggaaaaaaactattctttttttctcacttcatattattcctggtcagGTGTTTTTTGAATCGGATGAGGTCCATGCATGCATTGTCACATGTGGAGGACTGTGCCCTGGACTGAACACTGTCATTAGGGAAATTGTATGTGGCTTAT

upper sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g44922.2 (Oryza sativa), 3'ss of exon 4
-----gtacgtcttcttcttttctcgcagtgcaagtggaatgatgatgtatcatgcatatttactatgtaacttttaatggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGTCTGTGCCCTGGGCTCAACACAGTCATCAGGGAAATTGTGTGTGGCCTTT
      || |    |  || || |  |  |  ||    |    |   |  |     |     |  || |    || ||      | |||| ||||||||||||||||||||| | ||||| |||||||| ||||| || || |||||||| || ||||| |||||||| ||  | || |||||  |  
gtatgatatgctgccccctcttttaactattgaaactcatcacttgcgcgtgggctaacagaaacatttggacttgaacc---tttagGTTTATTTTGAGTCAGATGAAGTGAAAGCATGCATTGTAACTTGTGGAGGCCTTTGCCCTGGTCTTAACACTGTCATCAGAGAGCTCGTCTGTGGTTTGG

upper sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G879882_T03 (Zea mays), 3'ss of exon 4
-----gtacgtcttcttcttttctcgcagtgcaagtggaatga-tgatgtatcatgcatatttactatgtaacttttaat-ggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGTCTGTGCCCTGGGCTCAACACAGTCATCAGGGAAATTGTGTGTGGCCTTT
       || | |    |  || |     |  |     | |||   ||| || ||    || ||  ||   |    || |      ||||||||||||||||||||| |||| | | || || |||||||| ||||| || || |||||||||||||| || |||||||| ||  | || |||||| | |
gtataacacatttgacacagttatacacctataccattagtgagcaatgcattattttcatgtaggataacataaatattcaaccttcagGTGTATTTTGAGTCAGAAGAAGCGAAAGCTTGCATTGTAACCTGTGGAGGCCTTTGCCCTGGGCTCAATACTGTCATCAGAGAGTTGGTTTGTGGCTTGT

upper sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G004932_T01 (Zea mays), 3'ss of exon 4
-----gtacgtct--tcttcttttctcgcagtgcaagtggaatgatgatgtatcatgcatatttactatgtaacttttaatggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGTCTGTGCCCTGGGCTCAACACAGTCATCAGGGAAATTGTGTGTGGCCTTT
      |||  ||   |  ||| | |    | |  |    |    |  | | |           |   | |    || ||   |  | |||| |||||||   | ||||||||| | || || |||||||| ||||| || |||||||||||||| ||||| || ||||||||| | ||||||||| | |
gtaagatacccctagccaccttgtttacttgcgggaactcatcactcgtatctaggctgacagaaacctttggacttgaaccttttttagGTTTATTTTGGCACCGATGAAGTGAAAGCCTGCATTGTAACTTGTGGAGGCCTGTGCCCTGGGCTTAACACTGTTATCAGGGAACTGGTGTGTGGCTTGT

upper sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G09320.1 (Glycine max), 3'ss of exon 3
--------------------gtacgtct-tcttcttttctcgcagtgcaagtggaatgatgatgtatcatgcat-----atttactatgtaacttttaat-----ggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGTCTGTGCCCTGGGCTCAACACAGTCATCAGGGAAATTGTGTGTGGCCTTT
                    || ||| | |  | | || |        |||   | | |  |||||| ||  ||     ||  |||    |||   ||||     | || |||||| || ||| | || ||||||||||| ||||| ||||| || |||||||| || |||||||| |||||||| ||||| ||||||||||| ||||| ||||
gtcatttcccttgtttgtctgtgcgtatattatatattattaagaattaagaatattaaaaatgtataattaattttgtatcaactcaccaacacctaatcatatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT

upper sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G09180.1 (Glycine max), 3'ss of exon 4
--------------------gtacgtcttcttcttttctcgcagtgcaagtggaatgatga----tgtatcatgcatatt-----tactatgtaacttttaat-----ggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGTCTGTGCCCTGGGCTCAACACAGTCATCAGGGAAATTGTGTGTGGCCTTT
                    || | | |   |  | | |      | |    ||||  | |    ||||| ||  || ||      |||    |||   ||||     | || |||||| || ||| | || ||||||||||| ||||| ||||| || |||||||| || |||||||| |||||||| ||||| ||||||||||| ||||| ||||
gtcatttcccttgtttgtctgtgcatatatattatatattattaagaactaagaatattaaaaaatgtataattaattttgtttccactcaccaacacctaatcatatgctgttcagGTATACTTTAAATCGGATGAAGTGCATGCATGCATTGTCACGTGTGGTGGACTCTGCCCTGGCCTCAACACTGTCATAAGGGAAATTGTCTGTGGTCTTT

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|161705826|gb|FC057103.1|FC057103
EST:     AGAATAGTCCAAGAGGGACACATTTCCGACGGGCAGGGCCTCGCCAAAAG                         GTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGT
genomic: AGAATAGTCCAAGAGGGACACATTTCCGACGGGCAGGGCCTCGCCAAAAGgtacgtcttc ... tggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGT
EST: gi|161716176|gb|FC068064.1|FC068064
EST:     AGAATAGTCCAAGAGGGACACATTTCCGACGGGCAGGGCCTCGCCAAAAG                         GTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGT
genomic: AGAATAGTCCAAGAGGGACACATTTCCGACGGGCAGGGCCTCGCCAAAAGgtacgtcttc ... tggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGT
EST: gi|110718348|gb|EE095077.1|EE095077
EST:     AGAATAGTCCAAGAGGGACACATTTCCGACGGGCAGGGCCTCGCCAAAAG                         GTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGT
genomic: AGAATAGTCCAAGAGGGACACATTTCCGACGGGCAGGGCCTCGCCAAAAGgtacgtcttc ... tggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtggaatgatgatgtatcatgcatatttactatgtaacttttaatggtgctcagGTGTATTTTGAGTCAGATGAAGTGCACGCATGTATTGTAACATGTGGTGGTCTGTGCCCTGGGCTCAACACAGTCATCAGGGAAATTGTGTGTGGCCTTT
                                       ttttaat  putative branch site (score: 3)
                       atatttactatgtaac  TA-rich tract