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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGTACGTTATCTACGAAGGTGACACCGTTTCTGGGAACTTTGTTGTCGTCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccctgcctaattctcatttaattcatctagttcttggatttttgtttttcttttcggggttttaatcgtagtggttaattgatttggggttgct...

Basic information

species Vitis vinifera
transcript Vv05s0020g04150.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g04150.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G009895_T01 (Zea mays), 5'ss of exon 1
TGAGTACGTTATCTACGAAGGTGACACCGTTTCTGGGAACTTTGTTGTCGTCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccctgcctaattctcatttaatt-catctagttcttggatttttgtttttcttttcggggttttaatcgtagtggttaattgatttggggttgct---
 |||| ||||   ||||| ||||||||||| || |||||||| || || ||||| |||||||| |||||| |||| |||||||| ||||||||  |||| |||    || |   |    | |   |    ||      || ||     ||   |||  |    ||||  |  |   | ||| |   ||  |||   ||| |   
CGAGTTCGTTCCGTACGAGGGTGACACCGTGTCCGGGAACTTCGTCGTTGTCGACCACGACATCTTCTGGAGCTCCGATCACCCAGGCATCGACCTCACGgtacacacccg---atccttgacccagccgcactacaatcctgcgcggttaaatttgatgggagggtcgtggtacgattgggtttatgggttgtt-ttgatggg

upper sequence: Vv05s0020g04150.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: AT3G22845.1 (Arabidopsis thaliana), 5'ss of exon 1
TGAGTACGTTATCTACGAAGGTGACACCGTTTCTGGGAACTTTGTTGTCGTCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtc-cctgcctaattctcatttaattcatctagttcttggatttttgtttttcttttcggggttttaatcgtagtggttaattgatt-tggggttgct---
 ||||||||  | |||||||| ||||| ||||| || ||||| || ||||||||||| || || |||||||| || ||||| |||||  | |||||||| ||  |    ||  | | ||  | ||| |  |    |||||||   |||      ||   ||||      |||||  | || || ||| ||  ||   ||| |   
AGAGTACGTCCTTTACGAAGGCGACACTGTTTCCGGTAACTTCGTCGTCGTCGATCATGATATCTTCTGGGGATCCGATCATCCTGGTTTGGATTTCACGgttagcgatctttcaatttacctttttaccccaaaagttcttaactttgatacgtttccttcga-----taatcccaatgtttgatttatcgtgaaattggtgtt
















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|51051985|gb|CO819332.1|CO819332
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|32244957|gb|CD710776.1|CD710776
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTTTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|30304834|gb|CB981628.1|CB981628
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|351041440|gb|FQ447567.1|FQ447567
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|22009989|gb|BQ795023.1|BQ795023
EST:     TCGATCACGACATTATCTGGGGTTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|18458532|gb|BM436810.1|BM436810
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|110391808|gb|EC956810.1|EC956810
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|110689594|gb|EE065965.1|EE065965
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|351045647|gb|FQ440832.1|FQ440832
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|110715167|gb|EE092904.1|EE092904
EST:     TCGATCACGACATTTTCTGGGGTTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|71879666|gb|DT028721.1|DT028721
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|87585357|gb|DY474109.1|DY474109
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|110707896|gb|EE084817.1|EE084817
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|110386948|gb|EC951583.1|EC951583
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|51051053|gb|CO818862.1|CO818862
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|71878189|gb|DT027244.1|DT027244
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|32245175|gb|CD710994.1|CD710994
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|27582549|gb|CB005244.1|CB005244
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|110373933|gb|EC938946.1|EC938946
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|110367618|gb|EC931562.1|EC931562
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|46917814|gb|CN547143.1|CN547143
EST:     TCGATCACGACATTTTCTGGGGTTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|71877713|gb|DT026768.1|DT026768
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|71878721|gb|DT027776.1|DT027776
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|110427983|gb|EC994440.1|EC994440
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGAAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
EST: gi|110701935|gb|EE080075.1|EE080075
EST:     TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACT                         GTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG
genomic: TCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccct ... tttcatgcagGTGACGTCTCCCGCAGGCAACACGGTGCACACTCTAAAGGGAACATCTGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAGTACGTTATCTACGAAGGTGACACCGTTTCTGGGAACTTTGTTGTCGTCGATCACGACATTTTCTGGGGCTCTGATCACCCTGGCATCGATTTCACTgtatgtccctgcctaattctcatttaattcatctagttcttggatttttgtttttcttttcggggttttaatcgtagtggttaattgatttggggttgct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccctgcc