Sequence
atgc intronic sequence ATGC exonic sequencegtctgcttatttttcagtttttctcttgttttcattctcattaactattgttgacctagcttgatacgaaatttcagGTTTTTGATGAAGCTCAACAACGAGACTGTGTCAATTGAGCTCAAGAACGGTACCGTTGTTCATGGCACCATCACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0015g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os04g39444.1 (Oryza sativa), 3'ss of exon 1
--------------------------------------------------------gtctgcttatttttcagtttttctcttgttttcattctca---ttaactattgttgacctagcttgatacgaaattt----cagGTTTTTGATGAAGCTCAACAACGAGACTGTGTCAATTGAGCTCAAGAACGGTACCGTTGTTCATGGCACCATCACAG
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gtgaggctccggttcttctccacttcgttctgtcccgtttcgtttccctgtgtgtcttccctttgctgatccgtatggtgcaaattttcccccgcgaatttttttggtgcggatttggggcgtggggggtttcgctgcagGTTTCTGATGAAGCTGAACAACGAGACGGTCACCATCGAGCTCAAGAACGGCACCGTCGTCCACGGAACCATCACCG
upper sequence: Vv19s0015g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g37430.1 (Oryza sativa), 3'ss of exon 1
-------------------------------------gtctgcttatttttcagtttttctcttgttt---tcattctcattaactattgttgacctagcttgatacgaaatttcagGTTTTTGATGAAGCTCAACAACGAGACTGTGTCAATTGAGCTCAAGAACGGTACCGTTGTTCATGGCACCATCACAG
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gtaatccgcggctcccgcttcgctctccccttcccagatttgtttttttttctcctttttttgtggttaactggttcgtttcccgtgcgatttctcccgccgaattcggg--tgcagGTTCTTGATGAAGCTGAACAACGAGACGGTAACGATCGAGCTCAAGAACGGCACCACCGTCCATGGCACCATCACTG
upper sequence: Vv19s0015g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G33700.1 (Glycine max), 3'ss of exon 1
--------------------gtctgcttatt--tttcagtttttctcttgttttcattctcattaactattgttgacctagcttgatacgaaattt----cagGTTTTTGATGAAGCTCAACAACGAGACTGTGTCAATTGAGCTCAAGAACGGTACCGTTGTTCATGGCACCATCACAG
|| | | || ||| ||| ||| || ||||| |||| || | | | | ||| | | ||| | ||||||| |||||||||| |||||||| || || ||||| |||||||||||||| || |||||||| |||||||| ||||
gtctcacatattcattctcattccaccttttcctttttgttactctttttttttc-ttcttcttcttcactttgaagctaaaaagcgtctaaaactgaaacagGTTTCTGATGAAGCTGAACAACGAAACCGTATCAATCGAGCTCAAGAACGGCACAGTTGTTCACGGCACCATTACAG
upper sequence: Vv19s0015g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G30880.1 (Glycine max), 3'ss of exon 1
-------gtctgc-ttatttttcagtttttctcttgttttca---ttctcattaactattgttgacctagcttg-atacgaaattt---cagGTTTTTGATGAAGCTCAACAACGAGACTGTGTCAATTGAGCTCAAGAACGGTACCGTTGTTCATGGCACCATCACAG
||| | || | ||| | |||| ||| || ||| || | || | | | | ||| || || ||| | ||||||| | |||||||| |||||||| || || ||||| |||||||||||||| || ||||||||||||||||| ||||
gtctcacatcttcattctcattccgcgtttccctttttctcactttttttttttttcaatttgaagctaaaatgtgtataaaactggaacagGTTTCTCATGAAGCTGAACAACGAAACCGTTTCAATCGAGCTCAAGAACGGAACAGTTGTTCATGGCACCATTACAG
upper sequence: Vv19s0015g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G52210.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------------gtctgcttatttttcagtttttctcttgttttcattctcattaactattgttgacctagcttgatacgaaattt-------cagGTTTTTGATGAAGCTCAACAACGAGACTGTGTCAATTGAGCTCAAGAACGGTACCGTTGTTCATGGCACCATCACAG-
|||| |||| | | | | | || |||| || | | || | ||| ||||||| | ||||||||| |||||| | ||||| || || |||||||||||||||||||| || || |||||||||||||||| ||||
tttttctctgctctatctctctctttgtttttttttttttttgttgcgttggtaaattgatctgtttatgtgctgctatgtattttattttttttattttctgggatcaaag-tctaataatatacgaacactgcatgagcaggTTTTTAATGAAGTTGAACAATGAAACCGTGTCAATTGAGCTCAAGAATGGCACTATTGTTCATGGCACCATTACAGG
upper sequence: Vv19s0015g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G10640.1 (Glycine max), 3'ss of exon 2
----------------gtctgcttatttttcagtttttctcttgttttcattctcattaactattgttga--cctagcttgatacgaaattt-------cagGTTTTTGATGAAGCTCAACAACGAGACTGTGTCAATTGAGCTCAAGAACGGTACCGTTGTTCATGGCACCATCACAG
|| |||| | | | || | || |||| || ||||| || | | ||| ||||||| | |||||||| |||||| | ||||| || || |||||||||||||||||||| || || |||||||||||||||| ||||
gtttttctctttctttgttgcgttatctgttaattgcgtttttattttt-ttttcattttctgagatcaaagtctaataatatacgaacactgtatgagtagGTTTTTAATGAAGTTGAACAATGAAACCGTGTCAATTGAGCTCAAGAATGGCACTATTGTTCATGGCACCATTACAG
upper sequence: Vv19s0015g01330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G02840.2 (Arabidopsis thaliana), 3'ss of exon 1
----------------------------------------------gtctgctt---atttttcagtttttctcttgttttcattctcattaactattgttgacctagcttgatacgaaatttcagGTTTTTGATGAAGCTCAACAACGAGACTGTGTCAATTGAGCTCAAGAACGGTACCGTTGTTCATGGCACCATCACAG
| ||||| | |||| || ||| |||||||||| ||| | | ||| | | || || ||| | ||||||||||||||| | |||||||| || || ||||| ||||| |||||||| ||| |||||||||| ||||| || |
gtatggtttctactcggattctctttatttcttcggtttaattggaatttgcttcgaaattttgagatttctctttgttttcatgctcttcgatgtttgatttcgtatctggattttt--tcgcagGTTTTTGATGAAATTGAACAACGAAACAGTTTCAATCGAGCTTAAGAACGGAACCATTGTTCATGGAACCATTACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcttgttttcattctcattaactattgttgacctagcttgatacgaaatttcagGTTTTTGATGAAGCTCAACAACGAGACTGTGTCAATTGAGCTCAAGAACGGTACCGTTGTTCATGGCACCATCACAG
attaactatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgcttatttttcagtttttctcttgttttcattctcattaactattgttgacctagcttgatacgaaatttcagGTTTTTGATGAAGCTCAACAACGAGACTGTGTCAATTGAGCTCAAGAACGGTACCGTTGTTCATGGCACCATCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC