Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttcaatcatcttctacttaaatttgtttcctttcaatcttttaattctcaacctaacgtctgttggtttttggctaagtcacttcggaaactttctgttagaacttgctctttatttaattttgctgtcacattagaaattagctatctttatatcatgtccctgatgtggtgcattgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGTCATCAGAACGAGGAAATCAGTGGCGATGAAGGCAGTGAAGAAGAGGAAG

Basic information

species Vitis vinifera
transcript Vv13s0067g01710.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g01710.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G02820.1 (Glycine max), 3'ss of exon 6
gtgagtttcaatcatcttctacttaaatttgtttcctttcaatctttta-attctcaacctaacgtctgttggtttttggctaagtcacttcggaaactttctgttagaacttgctctttatttaattttgctgtcacattagaaattagctatctttatatcatgtccctgatgtggtgcattgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGTCATCAGAACGAGGAAATCAGTGGCGATGAAGGCAGTGAAGAAGAGGAAG
|||||| ||||   || |||||    |||| |||  | |  |||   || ||  || | | |  ||       |||||| | |  |  ||| |||  || | |  ||    ||| | |   | ||        |  | | ||||| |   |||||||  | |        |||  | |     ||||||||||||||||||| || |||||| | ||||| ||||| |||||||||||| | ||  | || || ||  ||||||| ||||||| |||||| || || ||||
gtgagtgtcaact-tcctctac----atttcttttttatttatcaactacatattctatcca-tgtacac-aatttttgtccatctgcctttggatcctcttttctatcgtttgatgtcagtata--------gggagagtagaattctactatcttattttgggaggtttgacattgctttgtgattcagGTGAGTGAACGTGATGATAAATTGCTTGCCGAGCACATGGCTAAGCTACGCCAAGATAATGAAGAGGTCAGTGGTGATGAAGACAGTGAGGAGGAAGAAG

upper sequence: Vv13s0067g01710.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G35600.1 (Glycine max), 3'ss of exon 6
gtgagtttcaatcatcttctacttaaatttgtttcctttcaatcttttaattctcaacctaacgtctgt-tggtttttggctaagtcacttcggaaactttctgttagaacttgctctttatttaattttgctgtcacattagaaattagctatctttatatcatgtc---cctgatgtggtgcattgattc--agGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGTCATCAGAACGAGGAAATCAGTGGCGATGAAGGCAGTGAAGAAGAGGAAG
|||||| ||||   || ||||     |||||||| |||      | | || | |  |  | |    |||      ||| |   |    | |  | | | | || ||| | |||    || ||   | | |   |  ||| || || |   |||  ||  |||  ||       |||    |     ||||||  ||||||||||||| || |||||| | ||||||||||| |||||||||||| | ||  | || || ||  ||||||| ||||||| |||||| || || ||||
gtgagtgtcaact-tcctctat----atttgttttctt---gattatcaactatatatttgatccatgtacaaaattttgtccatctgcctttggatcctccttttatatctt----ttgatgccagtata--ggaacagtataattctactactttcttattttgggaggtttgacactgcattgtgattctcagGTGAGTGAACGTGATGATAAATTGCTTGCTGAGCACATGGCTAAGCTACGCCAAGATAATGAAGAGGTCAGTGGTGATGAAGACAGTGAGGAGGAAGAAG
















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|352777460|gb|FQ474094.1|FQ474094
EST:     AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCT                         GTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
genomic: AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCTgtgagtttca ... attgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
EST: gi|45771644|gb|CN007496.1|CN007496
EST:     AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCT                         GTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
genomic: AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCTgtgagtttca ... attgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
EST: gi|110417233|gb|EC983272.1|EC983272
EST:     AAATTGATCGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCT                         GTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
genomic: AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCTgtgagtttca ... attgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
EST: gi|110425576|gb|EC991964.1|EC991964
EST:     AAATTGATCGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACTCAGAGCT                         GTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
genomic: AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCTgtgagtttca ... attgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
EST: gi|110698113|gb|EE075755.1|EE075755
EST:     ATATTGATCGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCATAGCT                         GTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
genomic: AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCTgtgagtttca ... attgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
EST: gi|30329600|gb|CD012862.1|CD012862
EST:     AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCT                         GTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
genomic: AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCTgtgagtttca ... attgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
EST: gi|30305055|gb|CB981849.1|CB981849
EST:     AAATTGATCGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCT                         GTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
genomic: AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCTgtgagtttca ... attgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
EST: gi|110401163|gb|EC967762.1|EC967762
EST:     AAATTGATCGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCT                         GTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
genomic: AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCTgtgagtttca ... attgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
EST: gi|110708703|gb|EE086544.1|EE086544
EST:     AAATTGATCGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCT                         GTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
genomic: AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCTgtgagtttca ... attgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
EST: gi|110401746|gb|EC968364.1|EC968364
EST:     AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCT                         GTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT
genomic: AAATTGATTGCCACAAAGGAAAGCTTATCGTAAAGGAGGCACCCAGAGCTgtgagtttca ... attgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acattagaaattagctatctttatatcatgtccctgatgtggtgcattgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGTCATCAGAACGAGGAAATCAGTGGCGATGAAGGCAGTGAAGAAGAGGAAG
                                            cattgat  putative branch site (score: 4)
               tatctttatatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtttcaatcatcttctacttaaatttgtttcctttcaatcttttaattctcaacctaacgtctgttggtttttggctaagtcacttcggaaactttctgttagaacttgctctttatttaattttgctgtcacattagaaattagctatctttatatcatgtccctgatgtggtgcattgattcagGTGAGTGAACGGGACGATAAACTACTTGCTGAGCATATGGCTAAGCTAAGTCATCAGAACGAGGAAATCAGTGGCGATGAAGGCAGTGAAGAAGAGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA