Sequence
atgc intronic sequence ATGC exonic sequence...tatgagtgagtgaattctctttgtgatttaggctttattttttaatcatgttatatttataataattttggttgtctatatattttttttatgctggcagGCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACATGGGGGTGTTGAGATGGGGCAAGGTTTACATACAAAAGTTGCTCAAGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G41520.1 (Glycine max), 3'ss of exon 10
tatgagtgagtgaattctctttgtgatttaggctttattttttaatcatgttatatttataataattttggt-tgtctatatattttttttatgctggcagGCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACATGGGGGTGTTGAGATGGGGCAAGGTTTACATACAAAAGTTGCTCAAGTTG
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aattttcttttgcttcatattcctattttgttagttgtgaaatgattgcattat-tagatagtaataatggtgtactttcatattttctcaataactgtagGCAGGTGCTCTGGTTCAAGTCTATACAGATGGAACTGTTTTAGTTACCCATGGGGGTGTCGAAATGGGGCAAGGTTTGCATACCAAAGTTGCCCAAATTG
upper sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G03870.1 (Glycine max), 3'ss of exon 9
tatgagtgagtgaattctctttgtgatttaggctttattttttaatcatgttatatttataataatt-ttggttgtctatatattttttttatgctggcagGCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACATGGGGGTGTTGAGATGGGGCAAGGTTTACATACAAAAGTTGCTCAAGTTG
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aattttcttttgctttatattcctattttgttagttgtgaaatgattgcattat-tagatagtaataattgtgtactttcatattttctcaataactatagGCAGGTGCTCTGGTTCAAGTCTATACGGATGGAACTGTTTTAGTTACCCATGGGGGTGTAGAAATGGGGCAAGGTTTGCATACCAAAGTTGCCCAAATTG
upper sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G34900.1 (Arabidopsis thaliana), 3'ss of exon 9
------------------------------------------------------------tatgagtgagt--gaattctctttgtgatttag-----gctttattttttaa---tcatgttatatttataataattttggttgtctatatattttttttatgctggcagGCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACATGGGGGTGTTGAGATGGGGCAAGGTTTACATACAAAAGTTGCTCAAGTTG
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gttatctttgtttgatgtgaatccttttctttcaaatttagttatctgtcgaggaactgaaaagattaagctaaagcttccttggaaatctcaccattgcactaccgttcaaagctagaatctgaattttgagatacttaatccaatatataattaaacggctgtcacagGCCGGTGCTCTTGTTCACGTTTACACCGATGGGACTGTTTTGGTGACACATGGAGGTGTTGAGATGGGCCAAGGGTTGCATACAAAGGTTGCTCAAGTTG
upper sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G34890.1 (Arabidopsis thaliana), 3'ss of exon 9
---------------------------------------------------------------------------------------tatgagtgagtgaattctctttgtgatttaggctttattttttaatcatgttatatttataataattttggttgtctatatattttttttatgctggcagGCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACATGGGGGTGTTGAGATGGGGCAAGGTTTACATACAAAAGTTGCTCAAGTTG
| | | || | | | ||| | ||| | | | ||| | ||| |||| | ||| || || | ||| | ||| | ||||| || ||| | |||||||| || || || || |||||||||||||| ||||| ||||| |||||||| ||||| || |||||||| || ||||||||||
gttatctttggttgacatggatcctttttctttcaagttagttatctgtcgagaaactggaacaataagagaaaatctgccatggaaatttcgccaatgcactaccattgcttgcaaagctagaatcta-aattttaaaatacttatcttttattt--ttccctccacattatggggatgtta-cagGCCGGAGCTCTTGTTCATGTTTACACTGACGGGACTGTTTTAGTGACTCATGGTGGTGTGGAGATGGGTCAAGGATTGCATACAAAGGTCGCTCAAGTTG
upper sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ27160 (Selaginella moellendorffii), 3'ss of exon 9
tatgagtgagtgaattctctttgtgatttaggctttattttttaatcatgttatatttataataattttggttgtctatatattttttttatgctggcagGCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACATGGGGGTGTTGAGATGGGGCAAGGTTTACATACAAAAGTTGCTCAAGTTG
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--------------------------------gtgaatggtttaatcaggcagcttt-----tgatggtggaaatg-acggaattttctcgtcc----agGCAGGTGCATTGGTCCAAGTTTATACAGACGGTACAGTTCTAGTGACACATGGTGGAGTTGAAATGGGACAAGGTTTACACACAAAAATCGCACAGGTCG
upper sequence: Vv06s0004g02030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ33495 (Selaginella moellendorffii), 3'ss of exon 9
tatgagtgagtgaattctctttgtgatttaggctttattttttaatcatgttatatttataataattttggttgtctatatattttttttatgctggcagGCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACATGGGGGTGTTGAGATGGGGCAAGGTTTACATACAAAAGTTGCTCAAGTTG
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--------------------------------gtgaatggtttaatcaggcagcctt-----tgatggtggaaatg-acggaattttctcgtcc----agGCAGGTGCATTGGTCCAAGTTTATACAGACGGTACAGTTCTAGTGACACATGGTGGAGTTGAAATGGGACAAGGTTTACACACAAAAATCGCACAGGTCGMapped 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|294966690|gb|GW839681.1|GW839681EST: TGGTTCCAACAAAGTTTGGCATTTCCTTTACAACAAAGTTTATGAACCAG GCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACAT
genomic: TGGTTCCAACAAAGTTTGGCATTTCCTTTACAACAAAGTTTATGAACCAGgtaatatttg ... atgctggcagGCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACAT
EST:
gi|161719982|gb|FC067724.1|FC067724EST: TGGTTCCAACAAAGTTTGGCATTTCCTTTACAACAAAGTTTATGAACCAG GCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACAT
genomic: TGGTTCCAACAAAGTTTGGCATTTCCTTTACAACAAAGTTTATGAACCAGgtaatatttg ... atgctggcagGCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatgttatatttataataattttggttgtctatatattttttttatgctggcagGCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACATGGGGGTGTTGAGATGGGGCAAGGTTTACATACAAAAGTTGCTCAAGTTG
ttttttttat CT-rich tract
ttatatttataataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgagtgagtgaattctctttgtgatttaggctttattttttaatcatgttatatttataataattttggttgtctatatattttttttatgctggcagGCAGGTGCTTTAGTTCATGTCTATACAGATGGCACTGTTTTAGTGACACATGGGGGTGTTGAGATGGGGCAAGGTTTACATACAAAAGTTGCTCAAGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - -tcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggttgt