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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcattggccaacccattttttttcctgttcacctatctgactttctaaattcaatagaaataactcaacttatagtcttcttgagtctattgaaatggatctagagctctctctcttccatgaaaacccatttgagaaaattacagaggataacttcattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGTAGTGTATGATATAACAAGCCCAGAATCATTCAACAAAGCACAGTATTGG

Basic information

species Vitis vinifera
transcript Vv13s0019g04680.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0019g04680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os03g05740.1 (Oryza sativa), 3'ss of exon 4
----------------------gtatcattggccaaccc----attttt-tttcctgttcacctatctgactttctaaattcaatagaaataactcaacttatagtcttcttgagtctattgaaatggatcta---gagctctctctcttccatgaaaacccatttgagaaaattacagaggataacttcattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGTAGTGTATGATATAACAAGCCCAGAATCATTCAACAAAGCACAGTATTGG
                       || | |   |||| |     ||  |    | |||||     ||  ||     |   ||    |||||   ||     ||| || ||  ||| | |  |  ||| |||| |    |  |  | | | | |||          |  |  ||         | || |  |     | |||||||||||  ||||||| ||||||||  |||| ||||| | ||||||||| || || || ||||| || ||||||||||| | ||||||||| || |||
gtacacatacagcactatggttttagcttcttccaatcttgggataatggcatgctgttggtgcattagaagcattggttttgtgagaaagttctagtagtat-gtgttactgatttt--tacaattgatccatcttacgtgccacacatgcatatggtttttctcaatcaagaactcattggtaccagccaattttagGTATGCTGCCTTGGCACCTCTTTACTACAGAGGAGCTGCTGCTGCAGTTGTTGTCTACGACATAACTAGTCCAGAATCATTTAGCAAAGCACAATACTGG

upper sequence: Vv13s0019g04680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os10g30520.1 (Oryza sativa), 3'ss of exon 4
--------gtatcattggcc--aacccattttttttcctgttcacctatctgactttctaaattcaatagaaa---taactcaacttatagtcttcttgagtctattgaa--atggatctagagctctctctcttccatgaaaacccatttgaga--aaattacagaggataact--tcattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGTAGTGTATGATATAACAAGCCCAGAATCATTCAACAAAGCACAGTATTGG
         ||| |   ||    |   | | |||| ||   |      |   | |  ||   | | || |||    |    || ||| |  |   | |  ||||  |  |   | ||| || |    |  |      |||     | ||| |  |  |||  |   | || ||||  | | |  |||||||||||||  ||||||| |||||||| || || ||||  |  ||| |||| |||||||| ||||||||  |||||||||| ||||| ||||| || |||
gtgcataaatattagaagctttgattaactattttcccaagtgcatccttgcattaactctgtactatggaatttctgtaccatcttttgcttcacatatgtcttcttcacccttgatttacattgtttgcaagcatatgtgttgctattcgttaccaaagaagtcacgagaactggttaattttcagGTATGCTGCATTGGCACCTCTTTACTACCGGGGAGCTGGTGCCGCAATTGTTGTGTATGACATAACAAGTTCAGAATCATTTAACAAGGCACAATACTGG

upper sequence: Vv13s0019g04680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G362088_T02 (Zea mays), 3'ss of exon 5
gta--tcattggccaacccattttttttcctgttcacctatctg----acttt-ctaaattcaatagaaataactcaacttatagtcttcttgagtctattgaaatggatctagagctctctctcttccatgaaaaccc--atttgag--aaaattacagaggat---aacttcatt--cctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGTAGTGTATGATATAACAAGCCCAGAATCATTCAACAAAGCACAGTATTGG
|||  |   ||   |   || |  || |  ||   |||||  ||    ||||| |   |   |     |  |  ||   |  || ||||      | |  |  |       | |    | |       |||| |          |||   || | |   ||| ||    |  |  |     |||||||||||||  |||| |||||||||||  |||| ||||| | |||| |||| || |||||||||||||| || |||||||| | ||||||||||||||||
gtaatttggtgctgagatcagtacttattttggatacctaattgggatactttgccgcacgtacccacaggatttctgatagtattctttgcacatttgatccatctttctttgcaagcacaacagcacatgcatgtttttgcctgaatcaagagtcatgagaattgagagcttgtcaatttcagGTATGCTGCCTTGGCGCCACTTTACTACAGAGGAGCTGCTGCTGCAATTGTTGTCTATGATATAACAAGTCCGGAATCATTTAGCAAAGCACAGTATTGG

upper sequence: Vv13s0019g04680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G35230.3 (Glycine max), 3'ss of exon 4
gtatcattggccaacccattttttttcctgttcacctatctgactttctaaattcaatagaaataactcaacttat--agtcttcttgagtctattgaaatggatctagagctctctctcttccatgaaaacccatttgagaaaattacagaggataacttcattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGTAGTGTATGATATAACAAGCCCAGAATCATTCAACAAAGCACAGTATTGG
                                                         |     | | | | |||      |  |    |  |||||| |    | |   |    | | ||  | |  ||      ||  |   || |      | ||| |   |   |||||||||||||| | ||||| || || || || ||||| |||||||||||| | || ||||||||||||||||||||||| |||| |||||||||||| |||
--------------------------------------------------------gtgactgtcatttatctttccagattatgcataacctattgta-caaacc---attcttatttcaacaacaaatgttttttgaaatgaaatttgtttgctaattatctgtttcagGTATGCTGCGTTAGCACCGCTATATTACCGTGGTGCAGCAGTTGCAGTTATTGTTTATGATATAACAAGCCCAGAATCTTTCAGCAAAGCACAGTACTGG

upper sequence: Vv13s0019g04680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G32320.1 (Glycine max), 3'ss of exon 4
gtatcattggccaacccattttttttcctgttcacctatctgactttctaaattcaatagaaataactcaacttatagtcttcttgagtctattgaaatggatc---tagagctctctctcttccatgaaaacccattt---gagaaaattacagaggataacttcattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGTAGTGTATGATATAACAAGCCCAGAATCATTCAACAAAGCACAGTATTGG
                                                               | ||||   ||    ||||      |  ||   |||  ||     | | |  ||| | ||| |  ||||   ||||    |  ||| |      | ||| |   |   ||||||| |||||| | |||||||| || || || ||||| |||||||||||| | || ||||||||||||||||||||||| |||| |||||||||||| |||
--------------------------------------------------------------gtgactctcattt--atctttccagattaatcataatctattgtacaaaccattcttttttcaacaaaaaatgatttttgaaataaaatttgtttgctaattctctatttcagGTACGCTGCGTTAGCACCACTCTATTACCGTGGTGCAGCAGTTGCAGTTATTGTTTATGATATAACAAGCCCAGAATCTTTCAGCAAAGCACAGTACTGG

upper sequence: Vv13s0019g04680.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G54840.2 (Arabidopsis thaliana), 3'ss of exon 4
gtatcattggccaacccattttttttcctgttcacctatctgactttctaaattcaatagaaataactcaacttatagtcttcttgagtctattgaaatggatctagagctctctctcttccatgaaaacccatttgagaaaattacagaggataacttcattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGTAGTGTATGATATAACAAGCCCAGAATCATTCAACAAAGCACAGTATTGG
                                                            |   ||| |  | |  ||  || |   |  ||||  | | |||    | | || |         | ||||  | |  || |  | ||      | |||| |||  | |||||| |||| || |||||||| ||||| || || |||| |||||| ||| | |||||||||||||||||||| ||||| ||||| |||||||||||||||
----------------------------------------------------------gtattaaacccttcatgcagatttgtattgcttattttattagat---aaacgcttt---------gcaaacttact--aggatttaacctgcattcactttattttt-agGTATTCTGCTCTTGCACCACTATACTACCGTGGAGCTGGAGTTGCTGTTATTGTGTATGATATAACAAGCCCTGAATCGTTCAAGAAAGCACAGTATTGG

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|294963923|gb|GW836798.1|GW836798
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|351049141|gb|FQ449863.1|FQ449863
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|351031329|gb|FQ445354.1|FQ445354
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGATACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|110378503|gb|EC943640.1|EC943640
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|110386522|gb|EC951122.1|EC951122
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|110707796|gb|EE084605.1|EE084605
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|351029650|gb|FQ427490.1|FQ427490
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGATACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|351031354|gb|FQ445379.1|FQ445379
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGATACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|351036602|gb|FQ457315.1|FQ457315
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|110390981|gb|EC955931.1|EC955931
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|351033397|gb|FQ462048.1|FQ462048
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|30302011|gb|CB978805.1|CB978805
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|349830843|gb|FQ418151.1|FQ418151
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGATACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|110428129|gb|EC994591.1|EC994591
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|351016862|gb|FQ424289.1|FQ424289
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACCATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
EST: gi|110691925|gb|EE070587.1|EE070587
EST:     GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAG                         GTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT
genomic: GATTCTACGACAGTTAAGTTTGAAATATGGGACACTGCTGGTCAAGAGAGgtatcattgg ... cattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcttccatgaaaacccatttgagaaaattacagaggataacttcattcctcagGTATGCTGCGCTGGCACCACTTTACTATCGAGGTGCTGCAGTTGCAGTTGTAGTGTATGATATAACAAGCCCAGAATCATTCAACAAAGCACAGTATTGG
                                    ggataac  putative branch site (score: 3)
                                          cttcattcctc  CT-rich tract
                  atttgagaaaatta  TA-rich tract