Sequence
atgc intronic sequence ATGC exonic sequence...cttttgttttacatgccctaagttgagttgtgtatgctggctgtgtgagcaaccttttggattttcttctcgatgtttacttgctttggaaaatttgtagGTCAGTTTATTATGCTGCAACAGATGTAGTGATCCTTAGATTCATGATTGAAGTATGCTGGGCTCCCATGTTGGCTGCCTTCAGTGTTCCGCTTGACCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g14260.2 (Oryza sativa), 3'ss of exon 5
---------------------------------------------cttttgttttacatgccctaagttgagttgtgtatgctggctgtgtga-----gcaacc------ttttg--gattttcttctcgatgtttacttgctttggaaaatttgt---------agGTCAGTTTATTATGCTGCAACAGATGTAGTGATCCTTAGATTCATGATTGAAGTATGCTGGGCTCCCATGTTGGCTGCCTTCAGTGTTCCGCTTGACCAA
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gtaagtcatgctagatgtctagatggatagctcaatacctgtatacactaaatgcatgttttccttggtcatttttctttgctgcccatttgatttctgcaactacattattttactgatttgtctcatgtcaattatttatctagaatattttatgaatgaatcagGTCAGTATTCTATCCAGCAACAGATGTAGTAGTTTTGAAATTCATGGTCGAGGTTTGCTGGGCTCCTATGCTTGCTGCCTTCAGTGTTCCACTTGACCAG
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G40480.1 (Glycine max), 3'ss of exon 5
cttttgttttacatgccctaagttgagttgtgtatgctgg----ctgtgtgagcaaccttttggattttcttctcgatgtttacttgctttggaaaatttgtagGTCAGTTTATTATGCTGCAACAGATGTAGTGATCCTTAGATTCATGATTGAAGTATGCTGGGCTCCCATGTTGGCTGCCTTCAGTGTTCCGCTTGACCAA
|||| | | | | || | ||| | | | | || | | || || | | | | || | ||| |||| || ||| ||||||||||||||| |||||||| ||||| ||||| || ||||| |||||||||||||| || |||||||| || ||||| ||||||||||||||||| ||||| |||
-ttttatacttctttttctttttattactgtttgttttaaaacattttggggggaaagttcttaagtgtgttattgatatttattttctt---gcaatttgtagGTCAGTCTATTATGCAGCAACTGATGTTGTAATCCTCAGATTCATGATTGAGGTGTGCTGGGCACCAATGTTAGCTGCCTTCAGTGTTCCTCTTGATCAA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G45360.1 (Glycine max), 3'ss of exon 5
-----cttttgttttacatgccctaagttgagttgtgtatgctggctgtgtgagcaaccttttggat-tttcttctcgatgtttacttgctttggaaaatttgtagGTCAGTTTATTATGCTGCAACAGATGTAGTGATCCTTAGATTCATGATTGAAGTATGCTGGGCTCCCATGTTGGCTGCCTTCAGTGTTCCGCTTGACCAA
| || || | | | | ||| || || | || | | | || | || | | | || | ||| |||| |||||| ||||||||||||||| |||||||| ||||| ||||| || ||||| |||||||||||||| || |||||||| || ||||| ||||||||||||||||| ||| | |||
tatacttctttttctttctactactatttgttttaaa-atatt--ttgggggggaaagttcttatgtgtgtgttattgatatttatttgctt---gcaatttgtagGTCAGTCTATTATGCAGCAACTGATGTTGTAATCCTAAGATTCATGATTGAGGTGTGCTGGGCACCAATGTTAGCTGCCTTCAGTGTTCCTCTTAATCAA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 5
--cttttgttttacatgccctaagttgagttgtgtatgctggctgtgtgagcaaccttttggatttt----cttctcgatgtttacttgctttggaaaatttgtagGTCAGTTTATTATGCTGCAACAGATGTAGTGATCCTTAGATTCATGATTGAAGTATGCTGGGCTCCCATGTTGGCTGCCTTCAGTGTTCCGCTTGACCAA
| | ||| || ||||| || |||| | | | | | | |||||| |||| ||| || | |||||| ||||| |||||| | |||||||| ||||||||||| || ||||| |||||||||||||| || || ||||| || |||||||| |||||||||||||| ||||| |||
ccatgtccgtttgcagtttttaagt-gatttgttaaaa--aataaagaaaaatagttcctagattttttattttcttgatattcatttgctt---gccatttgcagGTCAATCTATTATGCAGCAACAGATGTTGTAATCCTGAGATTCATGATTGAGGTGTGTTGGGCACCGATGTTGGCAGCCTTCAGTGTTCCTCTTGATCAA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G45340.1 (Glycine max), 3'ss of exon 5
cttttgttttacatgccctaagttgagttgtgtatgctggctgtgtgagcaaccttttggatttt----cttctcgatgtttacttgctttggaaaatttgtagGTCAGTTTATTATGCTGCAACAGATGTAGTGATCCTTAGATTCATGATTGAAGTATGCTGGGCTCCCATGTTGGCTGCCTTCAGTGTTCCGCTTGACCAA
|| | | || |||| || || || | | | | | ||| || |||| ||| | | |||||| |||||| |||||| | |||||||| ||||||||||| || ||||| |||||||||||||| || || ||||| || ||||| || || ||||||||||| ||||| | |
-ttaatgtcaatttgtttgcagtttttttaagtgacttgttaaagaaaaatagttcctagatattttattttcttgatatgcatttgctt---gcaatttgcagGTCAATCTATTATGCAGCAACAGATGTTGTAATCCTGAGATTCATGATTGAGGTTTGTTGGGCACCGATGTTAGCCGCTTTCAGTGTTCCTCTTGATCGA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G34560.1 (Glycine max), 3'ss of exon 6
cttttgttt-tacatgccctaagttgagttgtgtatgctggctgtgtgagcaaccttttggatttt----cttctcgatgtttacttgctttggaaaatttgtagGTCAGTTTATTATGCTGCAACAGATGTAGTGATCCTTAGATTCATGATTGAAGTATGCTGGGCTCCCATGTTGGCTGCCTTCAGTGTTCCGCTTGACCAA
|||| || | |||| || || || | | | | | | ||| || |||| ||| | | |||||| |||||| |||||| | |||||||| ||||||||||| || ||||| |||||||||||||| || || ||||| || ||||| | || ||||||||||| ||||| | |
--aatgttcacactagtttgcagtttttttaagtgacttgtcaaagaaaaatagttcctagatattttattttcttgatatgcatttgctt---gcaatttgcagGTCAATCTATTATGCAGCAACAGATGTTGTAATCCTGAGATTCATGATTGAGGTGTGTTGGGCACCGATGTTAGTCGCTTTCAGTGTTCCTCTTGATCGA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G01960.1 (Arabidopsis thaliana), 3'ss of exon 5
-cttttgttttacatgccctaagttgagttgtgtatgctggctgtgtgagcaaccttttgga-ttttcttctcgatgtttacttgctttggaaaatttgtagGTCAGTTTATTATGCTGCAACAGATGTAGTGATCCTTAGATTCATGATTGAAGTATGCTGGGCTCCCATGTTGGCTGCCTTCAGTGTTCCGCTTGACCAA
||| |||| | | | || || | || || | | | | | |||| | | | ||| | | | | || | | | | ||||||||||||||||||| || | ||||| | || || ||||| ||| |||| || || |||||||| |||||||| || ||||||||||| ||||||||
ttctttcttttttttaattttaatttagctatg-atttttatactttcaactacctgaaaaagtgtatctcttggtttctgatttttgttttccact-gtagGTCAGTTTATTATGCAGCCTCGGATGTGATTATACTCAGATTTATGGTTGAGGTTTGTTGGGCTCCTATGTTGGCAGCTTTCAGTGTTCCACTTGACCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagcaaccttttggattttcttctcgatgtttacttgctttggaaaatttgtagGTCAGTTTATTATGCTGCAACAGATGTAGTGATCCTTAGATTCATGATTGAAGTATGCTGGGCTCCCATGTTGGCTGCCTTCAGTGTTCCGCTTGACCAA
aaaatttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttttgttttacatgccctaagttgagttgtgtatgctggctgtgtgagcaaccttttggattttcttctcgatgtttacttgctttggaaaatttgtagGTCAGTTTATTATGCTGCAACAGATGTAGTGATCCTTAGATTCATGATTGAAGTATGCTGGGCTCCCATGTTGGCTGCCTTCAGTGTTCCGCTTGACCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - -catgccc
- - - - - - - - - - - - - - - -gtatgct
- - - - - - - - - - - - - - - - - - - - -tgtgtga
- - - - - - - - - - - - - - - - - - - - - - - - -caacctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctttg