Sequence
atgc intronic sequence ATGC exonic sequence...agacactggctctgttacagtattcatgaaacacttaactgggaaatatgtgacttaaacataatattgtataaggaaatcatttttgtttctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os12g07670.1 (Oryza sativa), 3'ss of exon 1
-----agacactggctctgttacagtattcatgaaacacttaactgggaaatatgtgacttaaacataatattgtataaggaaatcatttttgtttctcct--gcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
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ctttcctaaaataaattcattattatgtttaccataattccatggtagaactttgtgagctcaaca-gttctcatctg------ccttttatgcttcttatatgcagTACAAAGTTGAAGAACCAGTTAAGCTCTGGGTGAACAAAGTCGGCCCTTACAATAATCCACAAGAAACTTACAACTATCACAGCCTTCCATTTTGTCAAC
upper sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os11g07910.1 (Oryza sativa), 3'ss of exon 1
---------agacactggctctgttacagtattcatgaaacacttaactgggaaatatgtgacttaaacataatattgtataaggaaatcatttttgtttctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
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gccatttctaaaaactaagcctactg----atttgtaatcacactgagaacaacttttgtatgttagtaatcacttcatctac-----ctgttatttaattttatgcagTACAAAGCTGAAGAAACGGTTAAACTCTGGGTAAACAAGGTTGGCCCGTACAATAACCCGCAAGAAACTTACAACTATTACAGCCTCCCATTTTGTCAGC
upper sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G026231_T01 (Zea mays), 3'ss of exon 1
agacactggctc--tgttacagtattcatgaaacacttaactgggaaatatgtgacttaaacataatattgtataaggaaatcatttttgtttctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
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--ttgctgattgagtgctgttttctttatgcttcctacatgccgtgcaaatattttctgaactcaaaaagttctcattccttttaatccttcttacatgcagTACAAAACTGAAGAGCCAGTTAAGCTTTGGGTGAATAAAGTTGGCCCTTACAATAATCCTCAAGAAACCTACAACTATTACAGCCTTCCATTTTGTCAAC
upper sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G420310_T01 (Zea mays), 3'ss of exon 1
agacactggctctgttacagtattcatgaaacacttaac---tgggaaatatgtgacttaaacataatattgtataaggaaatcatttttgtttctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
|| ||| | || ||| | | | || | | || || || || ||| | ||| | | | | ||||||| | || || |||| || | || ||||| || |||||||| |||||||| ||||| |||||||| |||||||||| |||||||||||||||||| |
-gattgctgcttgaatgttgttttccttatgcttcctacatgctgtgcaaatatgttccgtactcaaaatttctcatccctttcaatgct--tcttaatgcagTACAAAACTGAAGAGCCAGTTAAGCTTTGGGTGAATAAAGTTGGCCCTTACAACAATCCTCAAGAAACTTACAACTACTACAGCCTTCCATTTTGTCAAC
upper sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G087212_T01 (Zea mays), 3'ss of exon 1
agacactggctctgttacagtattcatgaaac--acttaactgggaaatatgtgacttaaac-ataatattgtataaggaaatcatttttgtttctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
||| || | | | | | | | || | | |||||| || || ||| | | | | || | || || || ||| | | |||||||| | ||||| || | || | || ||||||||||| ||||| ||||||||||| || |||||||| |||||||| | ||| || || |||||||| |
--ttgctgtcttt-tcagaatttacctgcactgaatttaactatgacgataatgcctttacctactaaatcattgcagcttataatatttttcttatgtgcagTATAAAACAGAAGAACCTGTTAAGCTATGGGTAAACAAGGTTGGGCCTTACAATAACCCTCAAGAAACTTACAACTATTACAGTCTCCCGTTTTGTCAAC
upper sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G13370.1 (Glycine max), 3'ss of exon 1
agacactggctctgttacagtattcatgaa---acacttaactgggaaatatgtgacttaaacataatattgtataaggaaatcatttttgtttctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
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---cactgaattagtgaaacagattaaatatgtatatttcatttgtagtgccaagtggtgaacaacttctgtttttaaaagaatgtattttattttgtttcagTATCAACACGATGAACCAGTTAACCTTTGGGTGAACAAAGTTGGTCCTTATAACAATCCACAAGAAACATACAACTATTACAGCCTCCCATTTTGTCATC
upper sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G30210.1 (Glycine max), 3'ss of exon 1
----agacactggctctg-ttacagtattcatgaaacacttaactgggaaatatgtgacttaaacataatattgtataaggaaatcatttttgtttctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
|| || | | ||| | ||| | || | | | | ||| | | | | || | || | | ||||| ||| | |||||||||| ||||| || || | || ||||| ||||||||||||||||| || |||||||||||||| |||||||| | |||||| ||||||||||| |
actgagctggtgaaacagattaaaatatgtgtatttcatctgt---agtatcaagtggtgaacagcttctgtttttaaacggatgtattttattttgt--tgcagTATCAACATGATGAACAAGTTAACCTTTGGGTGAACAAAGTTGGTCCTTATAACAATCCACAAGAAACATACAACTATTACAGCCTCCCATTTTGTCATC
upper sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G29120.1 (Glycine max), 3'ss of exon 1
agacactggctctgttacagtattcatgaaacacttaactgggaaatatgtgacttaaacataatattgtataaggaaatcatttttgtttctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
| ||| | | || | || | ||| || | | | | || || | | | || | || | || | |||||||||| |||||| | || || || ||||| ||||||||||||||||| || |||||||||||||| ||||| || | |||||| |||||||| | |
ttccttgagctaggagtaaagatacgtgcttcctttatttgtaagtagcttcatctcaaaatggctatctgtttaaaacatgtattggattttattgcagTATCAACAAGATGACCCAGTTACCCTTTGGGTGAACAAAGTTGGTCCTTATAACAATCCACAAGAAACGTACAATTATTACAGCCTACCATTTTGCCGTC
upper sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G20100.1 (Glycine max), 3'ss of exon 1
agacactggctct--gttacagtattcatgaaacacttaactgggaaata--tgtgacttaaacataatattgtataaggaaatcatttttgtttctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
| ||| || | ||| ||| | ||| | | | || || | | | || || | | | || | || || | || ||||||| |||||| | || | || ||||| ||||||||||||||||| || |||||||||||||| ||||| || | |||||| |||||||| |
---cttgagctaggagtaaagatatatatgtttc-ctttattcgtaagtagctcccagtcaacaatggctatctgtttaaaacatgtattgcattttattgtagTATCAACAAGATGACCCAGTTATCCTTTGGGTGAACAAAGTTGGTCCTTATAACAATCCACAAGAAACGTACAATTATTACAGCCTACCATTTTGCCGTT
upper sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G10950.1 (Arabidopsis thaliana), 3'ss of exon 1
agacactggctctgttacagtattcatgaaacacttaactgggaaatatgtgacttaaacataatattgtat-aaggaaatcatttttgttt----ctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
| ||| ||| | | || | | |||| || | | || | | | || | | ||| ||| |||||| | || | |||||||| | || |||||||| || || ||||||||||||||||| || || || |||||||||||||| |||||||| | ||| ||||||||||| | ||
gaattttggttcttactctctctt-----actagttaatcccataaacttttacatttctgtgcttttctgtcaagtcaattttttttgccttcacctttttcagTATCAAGCCGAGGAGCAGGTCACCCTATGGGTAAACAAAGTTGGCCCATATAACAATCCACAAGAAACATACAACTATTACAGTCTTCCATTTTGCCGCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgtgacttaaacataatattgtataaggaaatcatttttgtttctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
tcatttttgtttctcc CT-rich tract
ataatattgtataagg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agacactggctctgttacagtattcatgaaacacttaactgggaaatatgtgacttaaacataatattgtataaggaaatcatttttgtttctcctgcagTATCAGACAGATGAGCAGGTGACTCTGTGGGTAAACAAAGTTGGTCCTTACAATAATCCACAAGAAACCTACAACTACTTCAGCCTTCCATTTTGTCACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
-gacactg
- - - - - -ctgttac
- - - - - - - - - - - - - -gaaacac
- - - - - - - - - - - - - - - - - - - - -ggaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaggaaa