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

gtgaggatttgtgcccttatttgatcatgtgaggatttgggttgttcacacctttttttgtcctcttcccatcccatgataaaatggtttttatccaactatgttatgactattttaccttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAAGCTGTTGATTTATATGTACTTGAGCGGGCCTTGCTATCAATGCATTCTT

Basic information

species Vitis vinifera
transcript Vv07s0151g00550.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0151g00550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G04930.1 (Glycine max), 3'ss of exon 4
gtgaggatttgtgcccttatttg-atcatgtgaggatttgggttgttcacacctttttttgtcctcttcccatcccatgataaaatggtttttatccaactatgttat---gactattttaccttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAAGCTGTTGATTTATATGTACTTGAGCGGGCCTTGCTATCAATGCATTCTT
          |||   | |||   ||| | | |||   ||   | | ||     || |   | |   |    | |||||| |||     | ||||| |  | |||||       ||  |    ||    ||||| || ||||||||||| || |||||||| ||||| || | |||||| || ||||||||||| ||||| || ||  | ||  |  | ||||||||||| |
----------gtgagttcattcatatctttttaggtcctgtaatatccaa----ttatccattcatgttatgtaccatgagaaa-----tgttatcaatttgtgttacagaagttaagtgtattttgtttagGTTCTTATTGATTTTGGTTTGAGCTTCACTTCAACTCTACCTGAAGACAAGGCTGTTGATTTGTATGTTCTAGAAAGAGCTCTTATTTCAATGCATTCAT

upper sequence: Vv07s0151g00550.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G26110.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgaggatttgtgcccttatttgatcatgtgaggatttgggttgttcacacctttttttgtcctcttcccatcccatgataaaatggtttttatc---caactatg--ttatgactat---tttaccttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAAGCTGTTGATTTATATGTACTTGAGCGGGCCTTGCTATCAATGCATTCTT
                                                         |     |||||  |     ||||||| |  | || ||     |  ||||  | ||||| ||   | |  |||| |  |||| || ||||||||||| || ||| ||||||| ||| | | |||||| ||||||||||||||||||||||||||  | ||||| || ||||||||||| |
--------------------------------------------------------gtaagtatcttcagaggttgtgataaagttctcttgattagttacttatgattcatgaccatggatatgtcttccctcagGTACTAATTGATTTTGGCTTGAGCGTCACATCGACCTTGCCTGAAGACAAAGCTGTTGATTTATATGTACTTGAAAGAGCCTTACTCTCAATGCATTCGT
















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|71888132|gb|DT037187.1|DT037187
EST:     GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTG                         GTCCTCATTGATTTTGGGT
genomic: GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTGgtgaggattt ... cttctcctagGTCCTCATTGATTTTGGGT
EST: gi|26265932|gb|CA816995.1|CA816995
EST:     GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTG                         GTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
genomic: GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTGgtgaggattt ... cttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
EST: gi|110727233|gb|EE103760.1|EE103760
EST:     GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTG                         GTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
genomic: GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTGgtgaggattt ... cttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
EST: gi|37188657|gb|CF608006.1|CF608006
EST:     GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTG                         GTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
genomic: GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTGgtgaggattt ... cttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
EST: gi|28958875|gb|CB339437.1|CB339437
EST:     GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTG                         GTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
genomic: GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTGgtgaggattt ... cttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
EST: gi|27581764|gb|CB004459.1|CB004459
EST:     GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTG                         GTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
genomic: GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTGgtgaggattt ... cttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
EST: gi|28959679|gb|CB339840.1|CB339840
EST:     GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTG                         GTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
genomic: GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTGgtgaggattt ... cttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
EST: gi|26257835|gb|CA808898.1|CA808898
EST:     GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTG                         GTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
genomic: GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTGgtgaggattt ... cttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
EST: gi|71887554|gb|DT036609.1|DT036609
EST:     GTGATTTGACCACATCAAACATGTTAATACAGAATGGTACCAATCAACTG                         GTCCTCATTGAT
genomic: GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTGgtgaggattt ... cttctcctagGTCCTCATTGAT
EST: gi|26258595|gb|CA809658.1|CA809658
EST:     GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTG                         GTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
genomic: GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTGgtgaggattt ... cttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
EST: gi|30126284|gb|CB911623.1|CB911623
EST:     GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTG                         GTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA
genomic: GTGATTTGACCACATCAAACATGTTAATACAGAGTGGTACCAATCAACTGgtgaggattt ... cttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatgataaaatggtttttatccaactatgttatgactattttaccttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAAGCTGTTGATTTATATGTACTTGAGCGGGCCTTGCTATCAATGCATTCTT
                                    ctattttaccttctcc  CT-rich tract
     ataaaatggtttttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaggatttgtgcccttatttgatcatgtgaggatttgggttgttcacacctttttttgtcctcttcccatcccatgataaaatggtttttatccaactatgttatgactattttaccttctcctagGTCCTCATTGATTTTGGGTTAAGCTTCACATCAACCCTTCATGAAGATAAAGCTGTTGATTTATATGTACTTGAGCGGGCCTTGCTATCAATGCATTCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT