Sequence
atgc intronic sequence ATGC exonic sequencegtatttgagcttttcttttttctgaaaaaaaaaatcttgaaaatttgtattcctttattctactaattccaattatataatttatctgacttttctatattcttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os03g55600.1 (Oryza sativa), 3'ss of exon 4
gtatttgagcttttcttttttctgaaaaaaaaaatcttgaaaatttgtattcctttattctacta-attccaattatataatttatctgacttttctatattcttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAG
| ||| || | | || | |||| | | | || | | | ||| || | | | | |||| ||||| || ||| | |||||| |||| ||||| || ||||||||||| ||||| || ||||||||||||| |||||||| ||||| |||||||| ||||| || || |||
------------gtatttcttattacaatgattttctttcatctgattgttattctgtactaaggcatcgtggtaagctgaactatcctacttt-ctccattttc------aagCAAGTATGCCACCGTGATTTGAAGTTGGAGAATACACTGCTGGATGGAAGCCCTGCTCCACGCTTGAAAATATGTGACTTTGGCTATTCTAAG
upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G06250.1 (Glycine max), 3'ss of exon 4
---------------------------gtatttgagcttttcttttttctgaaaaaaaa---aatcttgaaaatttgtattcctt---tattcta-ctaattccaattatataatttatctgacttttctatattcttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAG
|| | | || | ||| || | || | | | | ||| ||| ||| |||| | || || | ||| |||| | | | ||| | || | |||||| || | |||||||||||| ||||||||||||| |||||||||||||||||||| || | | ||||||||||||||||||||| |||||||||
gtaactgatctctttctccctcactatctaatataaattgtatttaacctatgccagaatgtagtataggcaatgtgtcaatcttgagtattatgtctgatgtgatgtatgagtcttatgt-atcataatatgt-ctcctcatgaagGAAGTGTGTCACCGGGACCTGAAGTTGGAAAACACTTTGTTGGATGGAAGCCCGGCACTTCATTTGAAGATATGTGATTTTGGATACTCCAAG
upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G09460.1 (Glycine max), 3'ss of exon 4
-------------------------------------------gtatttgagcttttctt---ttttctgaaaaaaaaaatcttgaaa--atttgtattcct-ttattctactaattccaattatataatttatctgacttttct--atat-tcttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAG
| ||| || || | || | | | | | | || ||| ||||| | ||| ||| | | || | | || |||| | ||| | |||| ||| || | ||||||| ||||||| |||||||||||| ||||||| |||||| ||||||||||| | || || ||||| |||||||| ||||||||||||||||||
gtaattgaacattttcccctttctgctctgtccaatctaaattgagtttacactgcactgaaatgttgtagtatatatgacatgcaatgtattagtattagtattactcttttgaacattat-gtctgatgtatcagtcttcttataatatgtctcttcacgaagCAAGTATGTCATCGGGACTTGAAGCTGGAAAACACTTTGCTGGATGGAAGCTCGGCACCTCGTTTAAAGATATGCGATTTTGGGTACTCCAAG
upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G20610.4 (Glycine max), 3'ss of exon 4
----------------------------gtatttgagct--tttcttttttctgaaaaaaaaaatcttgaaaatttgta-ttcctttattctactaattccaa---ttata--taatttatctgacttttctatatt----cttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAG
||| | || || | |||| | | ||||| |||| | | || | || || | || |||| | || |||| | ||| | |||| | || || || |||||| ||||||| |||||||||||| | ||||| |||||| ||||||||||||| || || ||||| |||||||| ||||||||||||||||||
gtaattgaacattttccccttttctgttctatccaatctaaattgtgttttacacttcacactgcactgaaatgctgtaatatatgtaatgtattagtattaaacattatgtctgatgtatcagtcttgtttataatatgtctcttcataaagCAAGTATGTCATCGGGACTTGAAGCTTGAAAACACTTTGCTGGATGGAAGCCCGGCACCTCGTTTAAAGATATGCGATTTTGGGTACTCCAAG
upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G39020.2 (Glycine max), 3'ss of exon 4
gtatttgagct-tttcttttttctgaaaaaaaaaatcttgaaaatttgtattcctttattctactaa---ttccaattatataatttatctgacttttctatat-tcttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAG
||| ||| || ||||| | | | | | || || | | | || | || | | |||| | | | | | || | | |||| ||| | |||||| || | |||||||||||| ||||||||||||| || ||||||||||||||||| || | | ||||||||||||||||||||| |||||||||
gtaactgatctctttctcccacattatctgatataaatttaacctacgctagaatgtagtataggcaatgtgtcaatcttttgagtcttatg-catcataatatgtctcctcatgaagGAAGTGTGTCACCGGGACCTGAAGTTGGAAAACACGTTGTTGGATGGAAGCCCGGCGCTTCATTTGAAGATATGTGATTTTGGATACTCCAAG
upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G50500.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatttgagcttttcttttttctgaaaaaaaaaatcttgaaaatt-tgtattcctttattctactaattccaattatataatttatctgacttttctatattcttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAG
| | | | | ||||| || || | | ||| | | || | | | || | || | | ||| | || ||||||||||||| || ||||| ||||| |||||||||| ||||| |||||||| || || || |||||||| |||||||||||||| || ||||||
------------------gtacgcagagcagtgttcttgcaacttacttgaacttttctcgttctcgtgtataccactctggttttaattctgtgtttgattttcctg-tgaagCAAATATGCCATCGGGATCTGAAGCTGGAAAATACATTGTTAGATGGAAGTCCGGCACCTCGTTTGAAAATATGTGATTTTGGTTATTCCAAG
upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G50500.2 (Arabidopsis thaliana), 3'ss of exon 4
gtatttgagcttttcttttttctgaaaaaaaaaatcttgaaaatt-tgtattcctttattctactaattccaattatataatttatctgacttttctatattcttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAG-------
| | | | | ||||| || || | | ||| | | || | | | || | || | | ||| | || ||||||||||||| || ||||| ||||| |||||||||| ||||| |||||||| || || || |||||||| |||||||||||||| || ||||||
------------------gtacgcagagcagtgttcttgcaacttacttgaacttttctcgttctcgtgtataccactctggttttaattctgtgtttgattttcctg-tgaagCAAATATGCCATCGGGATCTGAAGCTGGAAAATACATTGTTAGATGGAAGTCCGGCACCTCGTTTGAAAATATGTGATTTTGGTTATTCCAAGGTACTAT
upper sequence: Vv07s0197g00080.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S113_72V6.1 (Physcomitrella patens), 3'ss of exon 4
gtatttgagcttttcttttttctgaaaaaaaaaatcttg---aaaatttgtattcctttattctact-aattccaattatataatttatctgacttttctatattcttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAG
| | ||| | ||||| | || || | || | | | ||| | | || | | || | | | | | | | | |||| || ||||||| || || ||||| |||||||||||||||||| || |||| |||||| | ||||| | |||| || ||||||||||| || || |||
------gtattactctaatccttgaaattttagattatgtccagaaatcggctacctggactttatttagttttcaattcctcgctcttatcaatattctgctcgtggttttctcagCAAATCTGCCATCGGGATTTGAAGTTGGAAAATACTCTGCTGGACGGAAGCGCCGCTCCTAGGCTGAAAATCTGTGATTTTGGATATTCGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctactaattccaattatataatttatctgacttttctatattcttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAG
cttttctatattcttt CT-rich tract
aattatataatttatc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttgagcttttcttttttctgaaaaaaaaaatcttgaaaatttgtattcctttattctactaattccaattatataatttatctgacttttctatattcttttgatgaagCAAATATGTCACCGGGACTTGAAGTTGGAAAATACTTTGTTGGATGGAAGCCCAGCTCCACGTTTGAAGATATGTGATTTTGGGTACTCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA