Sequence
atgc intronic sequence ATGC exonic sequence...gttgtatgatccactcatgggtgttgtttcattctgttctaattcatattttagttatgttgaattccatgtttcaattatcttgtaatttgtaacacagAGACTGAGGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAAACCTTAGCAACTTTATATTGCTTGGGCACTCTGTCGGGGGCTATGTTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os09g34860.1 (Oryza sativa), 3'ss of exon 3
gttgtatgatccactcatgggtgttgttt--cattctgttctaattcatattttagtta--tgttgaattccatgtttcaattatcttgtaatttgtaacacagAGACTGAGGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAAACCTTAGCAACTTTATATTGCTTGGGCACTCTGTCGGGGGCTATGTTGC
||| ||| | |||| || || || | | | | ||| | |||| || |||| || | | ||||| | |||| |||||||| |||||||| |||||||||||||| ||||| ||||| || || || || || ||||||||||| || |||||| | || || ||||||||
accacatg-catgttcagtaattctgttcggcacatgcttatattaaacagtgaagtaacctgttccctttttcctttctgttggttcat--tttgtga-gcagAAACTGAGGCATGGTTCATAGATTCCTTTGAGGAATGGCGCAAAGCAAAGAATCTCAGTAATTTTATATTGCTCGGTCACTCTTTTGGAGGATATGTTGC
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G079109_T01 (Zea mays), 3'ss of exon 3
gttgtatgatccactcatgggtgttgtt-tcattctgttctaattcatattttagt--tatgttgaatt-ccatgtttcaattatcttgtaatttgtaacacagAGACTGAGGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAAACCTTAGCAACTTTATATTGCTTGGGCACTCTGTCGGGGGCTATGTTGC
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--catcaaattcgtatatttattcagttcttaccatatgcttatgagtggtgtagtgacaagttacattattttgcctttcttatggtgtg-tttgtaa-acagAAACTGAGGCATGGTTCATAGATTCTTTCGAGGAGTGGCGCAAGGCCAAGAACCTCAGTAATTTTATATTGCTTGGTCACTCTTTTGGAGGATATGTTGC
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G40620.1 (Glycine max), 3'ss of exon 3
gttgtatgatccactcatgggtgttgtttcattctgttctaattcatattttagttatgttgaattccatgtttcaattat---cttgtaatttgtaacacagAGACTGAGGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAAACCTTAGCAACTTTATATTGCTTGGGCACTCTGTCGGGGGCTATGTTGC
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---gtcagaaccagagttgattcagaattgagaatgtttaatgttgttgcttaacttgaaaagttactgtggcaaaatactaaacttgttcttgatacaacagAAACTGAGGCATGGTTCATTGATTCTTTTGAGGAATGGAGAAAGGCCAAAAACCTGAGCAATTTTATACTACTTGGACATTCTTTTGGTGGTTATGTTGC
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G37460.1 (Glycine max), 3'ss of exon 3
gttgtatgatccactcatgggtgttgtttcattctgttcta-attcatattttagttatgttgaattccatgtttcaattatcttgtaatttgtaacacagAGACTGAGGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAAACCTTAGCAACTTTATATTGCTTGGGCACTCTGTCGGGGGCTATGTTGC
|| || ||| || | || |||| | || | || | || || | | | | ||| | || || |||| |||||||| |||||| ||||||| |||||||| ||| | || ||||||||||| ||||| |||||| | |||||||| ||| | || || ||||||||
---gtcagaaccagagttgattcagaattgggaatgtttaatgttgttgcttaacttgaatttactgtggcaaaatgctaaacttcttcttgatatatcagAAACTGAGGCGTGGTTCGTTGATTCTTTTGAGGAATGGAGAAAGGCCAAAAACCTGAGCAATTTTATACTACTTGGGCATTCTTTTGGTGGTTATGTTGC
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G24160.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------gttgta-tgatccactcatgggtgttgtttcattctgttc-taattcatattttagtt-atgt-tgaattccatgtttcaattatcttgtaatttgtaacacagAGACTGAGGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAAACCTTAGCAACTTTATATTGCTTGGGCACTCTGTCGGGGGCTATGTTGC
| || | | |||| ||| | ||| ||| || | | ||| | |||| || | | | | ||| | | || | |||| |||||||| ||||| || || ||||||||||| |||||||||||| | || || || |||||||| | | || || ||| | || |||||||||||
gtatttattccctctactgttaatgaatcgtggctaaactttcattggtaccctctcagtctcttaatggcttgtatatgagttgatataccagtaatgaaactgcattgttccttctttaattgtgcagAAACTGAGGCATGGTTTATCGACTCCTTTGAGGAATGGCGTAAAGCCCAGAATCTCAGTAACTTTATTCTATTAGGACATTCTTTTGGAGGCTATGTTGC
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ11844 (Selaginella moellendorffii), 3'ss of exon 2
gttgtatgatccactca-tgggtgttgtttcattctgtt-ctaattcatattttagttatgttgaattccatgtttcaat-tatcttgtaatttgtaacacagAGACTGAGGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAAACCTTAGCAACTTTATATTGCTTGGGCACTCTGTCGGGGGCTATGTTGC
| || | ||| || | | | | |||| || ||| || | || | | | || | || || | | |||||||| |||||| |||||||||||||| |||||||||||||||||||| || ||||| ||||| ||| || || | | || ||||| | || |||||||||||
gatg-agaatctcctggctagctctggttttcccacgtagctactttgtgacttggc-acttattttttcttgcgctgatgcgtggttctctttgtaac-tagAGACGGAGGCTTGGTTCATCGATTCCTTTGAGGAGTGGCGCAAGGCCAAGAACCTCGACAAATTCATTCTCTTAGGACACTCGTTTGGAGGCTATGTTGC
upper sequence: Vv18s0001g13610.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ13448 (Selaginella moellendorffii), 3'ss of exon 2
gttgtatgatccactcatgggtgttgtttcattctgttctaattcatattttagttatgttgaattccatgtttcaattatct----tgtaatttgtaacacagAGACTGAGGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAAACCTTAGCAACTTTATATTGCTTGGGCACTCTGTCGGGGGCTATGTTGC
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--ctcctggctagctc-tggttttcccacgtagctacttagttgtgacttttcacttggatggattttttcttgcgctgatgcgtggttctttttgtaac-tagAGACGGAGGCTTGGTTCATCGATTCCTTTGAGGAGTGGCGCAAGGCCAAGAACCTCGACAAATTCATTCTCTTAGGACACTCGTTTGGAGGCTATGTTGCMapped 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|110714661|gb|EE091822.1|EE091822EST: TTGGGGTGGATCAAGCAGGCCTGACTTCACTTGCAAAAGTACCGAAG AGACTGAAGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAA
genomic: TTGGGGTGGATCAAGCAGGCCTGACTTCACTTGCAAAAGTACCGAAGgttagtcatg ... tgtaacacagAGACTGAGGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattttagttatgttgaattccatgtttcaattatcttgtaatttgtaacacagAGACTGAGGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAAACCTTAGCAACTTTATATTGCTTGGGCACTCTGTCGGGGGCTATGTTGC
ttgtaac putative branch site (score: 2)
aattatcttgtaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtatgatccactcatgggtgttgtttcattctgttctaattcatattttagttatgttgaattccatgtttcaattatcttgtaatttgtaacacagAGACTGAGGCTTGGTTCATTGATTCCTTTGAGGAGTGGCGTAAAGCCAAAAACCTTAGCAACTTTATATTGCTTGGGCACTCTGTCGGGGGCTATGTTGC
- - - - - ccactca
- - - - - - - - - -ggtgttg
- - - - - - - - - - - - - - -cattctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatgtt