Sequence
atgc intronic sequence ATGC exonic sequence...tggaaaatgtagtttgtatgagtataatggttatatgagaacaccaaaatatttagacttactaatgttttgttgctctgatatttgatcacattttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGTGCTTACCCATTTGAGGACCCTGAGGAACCTAAGAACTTCCACAAGACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g41460.1 (Oryza sativa), 3'ss of exon 4
-------------------------------------------------------------tggaaaat--gtagtttgtatgagtataatggt-tatatgagaacaccaaaatattta----gacttactaatgtt-ttgttgctctgatatttgatcacattttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGTGCTTACCCATTTGAGGACCCTGAGGAACCTAAGAACTTCCACAAGACAA
||| | || || | || ||| || | | | | || | || || | | || ||| || ||||||| | ||||||| ||||| ||||| ||||| |||||| | || ||||||||||| ||||| || || |||||||| || || || |||||||| ||| |||||||
gtactcatatatttgaatttacatgcttgcgtcctgaatatggtgtcatggtgtctcagtctggtatattgatacatcatacatgtaccattttctccacttaagcaattgtactttcttcgcgaggcatcagtgcgattgctgactaaatatttgtttctcaacaaagATTGCTGATGTGTGGTCGTGTGGAGTAACCCTCTACGTAATGCTGGTTGGTGCATATCCTTTTGAGGATCCAGATGAGCCTAAGAATTTCAGGAAGACAA
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G171435_T02 (Zea mays), 3'ss of exon 6
tggaaaatgtagtttgtatgagtataatggttatatgagaacaccaaaatatttagact--tactaatgttttgttgctctgat--atttgatcac-attttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGTGCTTACCCATTTGAGGACCCTGAGGAACCTAAGAACTTCCACAAGACAA
||| | | | ||||| | || | ||| | | || || | | | || | || | ||||| ||||| | | | |||||||| ||||| ||||| ||||| |||||| | ||||||||| || ||||| || || ||||| ||||| || || ||||||||||||| ||||||||
----aaacctcatatttatgatttctattttagtatta-actgcctggttacctcctttacgaggaaagcttctcctcactgatgaatttgtttatgacaaacagATTGCTGATGTTTGGTCATGTGGTGTAACCCTCTATGTAATGGCTGTTGGTGCATATCCTTTTGAAGACCCAGAAGAGCCTAAGAACTTCCGCAAGACAA
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G29500.1 (Glycine max), 3'ss of exon 6
tggaaaatgtagtttgtatgagtataatggttatatgagaacaccaaaatatttagacttactaatgttttgttgctctgatatttg-atcacatt----ttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGTGCTTACCCATTTGAGGACCCTGAGGAACCTAAGAACTTCCACAAGACAA
| || | | | | | || | | || | || ||| | || | | ||| |||| ||| || | | |||||||||||||||| |||||||||||||| ||||||||||| ||| |||||||||| || || |||||||| || ||||||||||| || |||| |||||||
-----tagatattagatgttaatgcaaaagattcctggctagctatgcatttttttcttatttagtaatgccttgtattgatgtttccattctactatgattcagATTGCAGATGTGTGGTCTTGTGGGGTGACCTTATATGTCATGTTGGTGGGTGCATATCCTTTTGAGGATCCAGAGGAACCTAAAAATTTCCGGAAGACAA
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G01240.1 (Glycine max), 3'ss of exon 6
tggaaaatgtagtttgtatgagtataatggttatatgagaacaccaaaatatttagacttactaatgttttgttgctctgat---atttgatcacattttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGTGCTTACCCATTTGAGGACCCTGAGGAACCTAAGAACTTCCACAAGACAA
||||| ||| | | |||| || | ||||||||| |||| || | ||| | | | |||||||||||||| |||||||||||||| ||||||||||| ||| |||||||||| || || |||||||| || ||||||||||| || |||| |||||||
--attaatgtgaaagcactgatttcaggctagctatgctttttttttccctttcttatttactaatgccttgtattgatgtttccattctactatgact-cagATTGCAGATGTGTGGTCTTGTGGGGTGACCTTATATGTCATGTTGGTGGGTGCATATCCTTTTGAGGATCCAGAGGAACCTAAAAATTTCCGGAAGACAA
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G33120.1 (Glycine max), 3'ss of exon 6
tggaaaatgtagtttgtatgagtata-atggttatatgagaacaccaaaatatttagacttactaatgttttgttgctctgatatttgatcacattttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGTGCTTACCCATTTGAGGACCCTGAGGAACCTAAGAACTTCCACAAGACAA
||| || | || | ||| ||| | ||||| | | ||| | || || | | | | ||| | || | | |||||||||||||| |||||||| ||||| ||||||||||| ||| |||||||||| || || |||||||| || ||||||||||| || |||| ||||||||
aatgaaaggttatgattactattatgcatgcatggtctagaactcagctagctttttatttgttactttatactgatgttgacacccaattatgact-cagATTGCAGATGTGTGGTCTTGCGGGGTGACCTTATATGTCATGTTGGTGGGTGCATATCCTTTTGAGGATCCAGAGGAACCTAAAAATTTCCGCAAGACAA
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA02G15330.1 (Glycine max), 3'ss of exon 6
--tggaaaatgtagtttgtatgagtataatggttatatgagaacaccaaaatatttagacttactaatgttttgttgct-ctgatatttgatcacattttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGTGCTTACCCATTTGAGGACCCTGAGGAACCTAAGAACTTCCACAAGACAA
| | |||| | | | ||| || | | ||| | | ||| | | | || | ||| | | | | | | || | | ||||| |||||||| |||||||||||||| ||||||||||| ||| |||| ||||| || || |||||||| || ||||||||||| || |||| ||||||||
gtagtagaatgaaaggt-tgtgattactgttat-gcatgcatggtctagaattcagctagctttttatctgttgctaatgtttacactcaattatgact-cagATAGCAGATGTGTGGTCTTGTGGGGTGACCTTATATGTCATGTTGGTTGGTGCATATCCTTTTGAGGATCCAGAGGAACCTAAAAATTTCCGCAAGACAA
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G33950.1 (Arabidopsis thaliana), 3'ss of exon 6
-tggaaaatgtagtttgtatgagtataatg-gttatatgagaacaccaaaatatttagacttactaatgttttgttgctctgatatttgatcacattttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGTGCTTACCCATTTGAGGACCCTGAGGAACCTAAGAACTTCCACAAGACAA
||| || || | || |||| | || || | ||| || | | | ||| | | || | || || || || ||||||| |||||||||| |||||||||||||| || | ||||| |||||||| || || || || || || || || |||||||| ||||| ||| || || |
ttggtgaagaaagctattaagagtctgatttgtaaactgataattcttgagt-tttggttgaattagtcaaatgc-atcctaatgttcttcttttttttcagGTTGCAGATGTTTGGTCTTGTGGGGTTACTCTGTATGTCATGCTGGTTGGAGCATATCCTTTCGAAGATCCCGAGGAACCAAAGAATTTCAGGAAAACTA
upper sequence: Vv03s0063g01080.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ28967 (Selaginella moellendorffii), 3'ss of exon 6
-----------tggaaaatgtagtttgtatgagtataat-ggttatatgagaacac----caaaatatttagact-tactaatgtttt--gttgctctgatatttgatca-cattttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGTGCTTACCCATTTGAGGACCCTGAGGAACCTAAGAACTTCCACAAGACAA
| || | || | || | || | | | | ||| || | | | || | | ||| | || | || | ||| |||| | ||||||||||||||||||||||| || || || ||| | ||||| ||||| || ||||| ||||| || |||||||| ||||| || || ||||| | |||||| |
gtaagaccccaccgcgttgctacatagtctcagcactatcaactctctagaagcacagagcagagtgtccttcctctgatgatgatgcaggtgggtcagtgattcaatcatccctttcagATTGCAGATGTATGGTCCTGCGGCGTCACCCTGTATGTCATGCTCGTCGGTGCCTACCCCTTCGAGGACCCGGAGGATCCCAAAAACTTTCGCAAGACGAMapped 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|71872877|gb|DT021932.1|DT021932EST: CTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAG ATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGT
genomic: CTGCATACATTGCTCCTGAAGTCTTACTTAAGAAAGAATATGACGGGAAGgtaaattaat ... acattttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaatatttagacttactaatgttttgttgctctgatatttgatcacattttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGTGCTTACCCATTTGAGGACCCTGAGGAACCTAAGAACTTCCACAAGACAA
cattttc CT-rich tract
taatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggaaaatgtagtttgtatgagtataatggttatatgagaacaccaaaatatttagacttactaatgttttgttgctctgatatttgatcacattttcagATTGCAGATGTATGGTCTTGTGGGGTAACCTTATATGTAATGCTGGTGGGTGCTTACCCATTTGAGGACCCTGAGGAACCTAAGAACTTCCACAAGACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
-ggaaaat
- - - - - - - - - - - - - - - - - - - - acaccaa