Sequence
atgc intronic sequence ATGC exonic sequence...tgccagtagatggttagaagctttgatgatttcctcgaacaggctccaatttttttccataataatctatttcacttggcctcttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os06g40720.1 (Oryza sativa), 3'ss of exon 4
---tgccagtagatggttagaagctttga---tgatttcctcgaacaggctccaatttttttccataataatctatttcacttggcctcttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
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atttctctatagtaatctaaaaatttctagattgacaattcccatcagtttcagaattaagtcc----taacatgtaacactt--tctttttttgcatggcaccagAGGAAATGGACTGGGACAAGAATGGAATGGTGACCTTCAAAGAATTTCTGTTTGCATTCACTCGCTGGGTTGGGATTGACGAAAATGAGGACGACAATGA
upper sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g10470.1 (Oryza sativa), 3'ss of exon 4
tgccagtaga-tggttagaagctttgatgatttcctcgaacaggctccaatttttttccataataatctatttcacttggcctcttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
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-gtaagttttcttttttgtggtatcgtcacaaatctcacatgaacac-agtacacactgacaatgatggtcctaatacactcttttg----gtggtcccagAGGAAATGGATTGGGACAAGAATGGAACGGTGACCTTCAAGGAGTTCCTCTTCGCTTTTACTCGTTGGGTGGGGATTGATGATAACGAAGATGACGACGA
upper sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G155822_T01 (Zea mays), 3'ss of exon 4
tgccagtagatggttagaagctttgatgatttcctcgaacaggctccaatttttttccataataatctatttcacttggcct-cttgttttatt------attgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
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------tcctagattgcctattacagagacctcttagattccagtcctggttattacc-tgtttatatatttcccctgatatatttacttcatttggtggaatgcagAGGAGATGGACTGGGACAAGAATGGAACGGTGACCTTCAAGGAATTCCTTTTCGCTTTCACTCACTGGGTGGGGATCAATAATGAAGAAGACGAGGACGA
upper sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G006790_T01 (Zea mays), 3'ss of exon 3
tgccagtagatggttagaagctttgatgatttcctcgaacaggctccaattt-ttttccataataatctatttcac-ttggcctcttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
|||| | | | || ||| | | | || || | |||| | | || || ||| | || || |||||| ||||| ||||| || || |||||||||| ||||||||||| || ||||| ||||| || ||||| || ||||| || | |||||||||||| ||
--gaagtataaaaacttgcacactcataattcctgttactgttttgaaacttgcgtcccatcttcccagtcctgacgtttacctttctttacatggcactagAGGAAATGGACTGGGACAAGAACGGAATGGTGACATTCAAGGAGTTCCTGTTTGCCTTCACTCGCTGGGTAGGAATTGATGAAAATGAGGATGAAGATGA
upper sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G142693_T02 (Zea mays), 3'ss of exon 4
tgccagtagatggttagaagctttgatgatttcctcgaaca-ggctccaatttttttccataataatctatttcacttggcct---cttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
| | ||| | | | | ||| | | || | | | || | || | || | ||| | || | || ||| | | | ||||||| ||||||||||| || ||||| | |||| ||||||||| || ||||||||||| || || ||||| ||||| || || || ||||| || ||
cgtcggtacgttttcc----ttcttatgccctgtgggtacccgattgccatccctggatatgtttatatgtttgccctgatatttactactttggtgaatacagAGGAAATGGATTGGGACAAGAATGGCACAGTGACCTTCAAGGAATTCCTTTTTGCTTTTACTCGCTGGGTGGGGATCGATAATGAAGACGATGATGATGA
upper sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G16060.1 (Glycine max), 3'ss of exon 5
---tgccagtaga--tggttagaagctttgatgatttcctcgaacaggctccaatttttttccataataatctatttcacttggcctcttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
|| | | | | | | | ||| || | ||| ||||| || |||||| ||||| || ||| | | |||||| || |||||||||||||||||||||||||||||||||||||||||||| |||||||| || ||||||||||| ||||| || ||||||| || ||| |
atacagtagcaactctaaatcaaccttctctttgttttttcttcctagctagtattttatttactaataag-tattttgttt----tctctgcaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGAGGACGAGGAAAA
upper sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G33830.1 (Glycine max), 3'ss of exon 5
tgccagtagatggttagaagctttgatgatttcctcgaacaggctccaatttttttccataataatctatttcacttggcctcttgttttat--------tattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
|| || || | || | | || || | | | || | || || | ||||| ||| | | ||||||| | | |||||| || |||||||||||||||||||||||||| ||||||||||||||||| |||||||| || ||||||||||| ||||| || |||| ||||| ||| |
----tctatccagt-agcaactctaa--atcaactttgtctctgttttttcttcctaactagtattttattt-actaagtattttgttttctctgtaaaattctgcagAAGAAATGGATTGGGATAAAAATGGAATGGTTAACTTCAAGGAGTTTCTATTTGCTTTTACACGTTGGGTTGGAATTGATGAAGTTGACGATGAGGAAAA
upper sequence: Vv19s0015g01200.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G26470.1 (Arabidopsis thaliana), 3'ss of exon 4
tgccagtagatggttagaagctttgatgatttcctcgaacaggctccaatttttttccataataatctatttcacttggcctcttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
||| | || | | | ||| | ||| ||| | | | | | ||| | | | | ||||||||| ||||| ||||| || || ||||||||||||||||| |||||||| || || || || | ||||||||||| || || | ||| || ||||||||
------------gttt--attcttaaactccctccctcttcttctcaagctttcttcttcactgaaccaagaatattgattttgattcctgtgtctgcagAGGAAATGGACTGGGACAAGAACGGAATGGTGAACTTCAAAGAGTTTCTCTTCGCATTTACGCAGTGGGTTGGGATAGATGAGAATGAAGAAGAAGAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccaatttttttccataataatctatttcacttggcctcttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
cctcttgttttatt CT-rich tract
ttttttccataataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgccagtagatggttagaagctttgatgatttcctcgaacaggctccaatttttttccataataatctatttcacttggcctcttgttttattattgcagAGGAGATGGATTGGGATAAAAATGGAATGGTGAACTTCAAGGAGTTTCTTTTTGCTTTCACCCGTTGGGTTGGGATTGACGATATTGAGGATGAAGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - tggttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggcctc