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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctttcttcatttctctatctggatgtttctgttgtgtgttgagtgtggtgatttcctgttgtggaatctggagattggtgatttttttatttggatttttttgtttgtttgtttgttttttttttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCTGCTCTCCTACCGGAGTT

Basic information

species Vitis vinifera
transcript Vv14s0108g00010.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0108g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G150616_T01 (Zea mays), 3'ss of exon 1
gtctttcttcatttctctatctggatgtttctgttgtgtgttgagtgtggtgatttcctgttgtggaatctggagattggtgatttttttatttggatttttttgtttgtt--tgtttgttttttttttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCTGCTCTCCTACCGGAGTT
                     ||| | |   |  |  |  ||   |        |     |  |||    || || | | || ||| ||   ||   ||  |||| || ||  |||| |||   |||||     |||||||  |||||||||||||||||| ||||||||| || ||  |||| | || | |  | |  || || 
--------------------gtgggtatccgtcctaaggattcctttcaagctctggggatcatggg---tgcagttcgctggtttattctcttctgttggtttgcttattgttgttggttcgcttttt--ccgcagATCTGCTGTACAAGGACTACCAGACTGACCACAAGTTCACCCTCACTACCTACACCTCCAATGGCGTC
















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|110387352|gb|EC952011.1|EC952011
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGT
EST: gi|77584194|gb|DV221153.1|DV221153
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71856250|gb|DT005305.1|DT005305
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71854808|gb|DT003863.1|DT003863
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|294966303|gb|GW837554.1|GW837554
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGCAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|110702383|gb|EE081035.1|EE081035
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGCAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71877395|gb|DT026450.1|DT026450
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|110685633|gb|EE062525.1|EE062525
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|161708366|gb|FC057042.1|FC057042
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71854973|gb|DT004028.1|DT004028
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|110694680|gb|EE071996.1|EE071996
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71855582|gb|DT004637.1|DT004637
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|110703939|gb|EE081313.1|EE081313
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGCAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71874996|gb|DT024051.1|DT024051
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71865784|gb|DT014839.1|DT014839
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|161715473|gb|FC069049.1|FC069049
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|77588481|gb|DV223453.1|DV223453
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71856067|gb|DT005122.1|DT005122
EST:     GATGGGCAACGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|110693440|gb|EE069671.1|EE069671
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGCAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|110691473|gb|EE069615.1|EE069615
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGCAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71875650|gb|DT024705.1|DT024705
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71875894|gb|DT024949.1|DT024949
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71859244|gb|DT008299.1|DT008299
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71855463|gb|DT004518.1|DT004518
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71859018|gb|DT008073.1|DT008073
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71854654|gb|DT003709.1|DT003709
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|110693844|gb|EE070431.1|EE070431
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGCAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71876956|gb|DT026011.1|DT026011
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71857546|gb|DT006601.1|DT006601
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71856209|gb|DT005264.1|DT005264
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|32268425|gb|CD717584.1|CD717584
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGCAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|110701982|gb|EE080178.1|EE080178
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGCAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|161710352|gb|FC058989.1|FC058989
EST:     GATGGGCAAGGGTCCGGGTCTGTAC-CTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGATCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|71858139|gb|DT007194.1|DT007194
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|110376066|gb|EC941106.1|EC941106
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|77583183|gb|DV220629.1|DV220629
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
EST: gi|37184727|gb|CF604081.1|CF604081
EST:     GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAG                         ATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT
genomic: GATGGGCAAGGGTCCGGGTCTGTACACTGAGATCGGAAAGAAGGCTAGAGgtctttcttc ... ttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatttttttatttggatttttttgtttgtttgtttgttttttttttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCTGCTCTCCTACCGGAGTT
                 tttttttgtttgtttg  CT-rich tract
                atttttttgtttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctttcttcatttctctatctggatgtttctgttgtgtgttgagtgtggtgatttcctgttgtggaatctggagattggtgatttttttatttggatttttttgtttgtttgtttgttttttttttggtttcagATCTTTTGTACAAGGACTACCAGAGTGACCACAAATTGACGATCACGAGCTGCTCTCCTACCGGAGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT