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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgacaattcctcattttagtgccttgtgcttgaagcaacatctaaaattgttttgtacaattaactgactaacatatatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG

Basic information

species Vitis vinifera
transcript Vv14s0060g01290.t01
intron # 5
splice site 3'
intron type U2

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|33401772|gb|CF207399.1|CF207399
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110732858|gb|EE108510.1|EE108510
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATTCTGAAGATGANNAGCCAGAG                         GGATATGATGACNTCCCGAAGGAGATACCAGATCCTGATGCAAAGA-GCCT
genomic: -TTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAGCCT
EST: gi|110381806|gb|EC935430.1|EC935430
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110372400|gb|EC936562.1|EC936562
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|351056636|gb|FQ443263.1|FQ443263
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|349816036|gb|FQ413550.1|FQ413550
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|351027478|gb|FQ444727.1|FQ444727
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110700083|gb|EE077719.1|EE077719
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110687770|gb|EE065562.1|EE065562
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAAGAGATACCAGA
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGA
EST: gi|349808465|gb|FQ405609.1|FQ405609
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110699525|gb|EE076601.1|EE076601
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATTACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110732288|gb|EE107443.1|EE107443
EST:     ATTGGGATGAGAAAGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACC-GATCCTGATGCAAAGA
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGA
EST: gi|352794106|gb|FQ479348.1|FQ479348
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|349826885|gb|FQ418976.1|FQ418976
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|29781779|gb|CB346544.2|CB346544
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|33401998|gb|CF207625.1|CF207625
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110687446|gb|EE064865.1|EE064865
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|30295872|gb|CB972666.1|CB972666
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110729565|gb|EE105649.1|EE105649
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAA
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAA
EST: gi|110357396|gb|EC920905.1|EC920905
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|294964759|gb|GW838562.1|GW838562
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110702773|gb|EE079035.1|EE079035
EST:     TTGGGATGAGAAGGAGTACATTCCTGATCCTNGA-GATGAGAAGCCAGAA                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCNAAGAAG
genomic: TTGGGATGAGAAGGAGTACATTCCTGATCCT-GAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|351043138|gb|FQ451311.1|FQ451311
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110688081|gb|EE066225.1|EE066225
EST:     TTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAAGA-GCCAGAG                         GGATATGATGACATCCCGAAAGAGATACCAGATCCTGATGCAAAGAAGCCT
genomic: TTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGA-GAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAGCCT
EST: gi|351022735|gb|FQ428644.1|FQ428644
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|33402080|gb|CF207707.1|CF207707
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|77578221|gb|DV217893.1|DV217893
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110727891|gb|EE105170.1|EE105170
EST:     ATTGGGATGAGGAGGAGTACATTCCTGATCCTGAAGATGAGA-GCCAGAG                         GGATATGATGACATCCCGAAG-AGATAACAGATCCTGATGCAA-GAAACCT
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAGCCT
EST: gi|30295943|gb|CB972737.1|CB972737
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|110708716|gb|EE086573.1|EE086573
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|161716555|gb|FC065240.1|FC065240
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|71870544|gb|DT019599.1|DT019599
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
EST: gi|349810157|gb|FQ401603.1|FQ401603
EST:     ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAG                         GGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
genomic: ATTGGGATGAGAAGGAGTACATTCCTGATCCTGAAGATGAGAAGCCAGAGgtgacaattc ... atatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaagcaacatctaaaattgttttgtacaattaactgactaacatatatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG
                                    gactaac  putative branch site (score: 1)
            taaaattgttttgtac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgacaattcctcattttagtgccttgtgcttgaagcaacatctaaaattgttttgtacaattaactgactaacatatatttacagGGATATGATGACATCCCGAAGGAGATACCAGATCCTGATGCAAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG