Sequence
atgc intronic sequence ATGC exonic sequencegtattgttcgttgttggtaattggggtgagaggcttttcagaatgtgtactcaaatggattgaaactgaatgcggttgctttttatttgctttgctttgcagCTCGGGGACTTCTGGCGGGGAGAGGAAGCTGATGCCAACCATAGAAGAAGAGCTGGAGAGGAGGTCATTGCTTTATAGTCTGCTCATGCCGGTGATGAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g04690.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os05g42150.1 (Oryza sativa), 3'ss of exon 1
gtattgttcgttgttggtaattggggtgagaggcttttca-gaatgtgtactcaaatggattgaaactgaatgcggttgctttttatttgctttgctttgcagCTCGGGGACTTCTGGCGGGGAGAGGAAGCTGATGCCAACCATAGAAGAAGAGCTGGAGAGGAGGTCATTGCTTTATAGTCTGCTCATGCCGGTGATGAGC
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------gtaggtgtgctctactcctgcatgcgtgtacacatggtcgagcacttcgccggcgtgaact--aatggtgtgg----tgatgtataatgcgt-gcagCTCCGGCACGTCGGGTGGGGAGAGGAAGCTGATGCCGACGATAGAGGAGGAGATGGAGCGGCGGTCGGGGCTGTACAGCTTGCTGATGCCGGTGATGAGC
upper sequence: Vv19s0014g04690.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G061515_T01 (Zea mays), 3'ss of exon 1
---------gtattgttcgttgttggtaattggggtgagaggcttttcagaatgtgtactcaaa--tggattgaaactgaa---tgcggttgctttttatt-----tgctttgctttg---cagCTCGGGGACTTCTGGCGGGGAGAGGAAGCTGATGCCAACCATAGAAGAAGAGCTGGAGAGGAGGTCATTGCTTTATAGTCTGCTCATGCCGGTGATGAGC
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gtagtatattcatccctcacgtacgatcacaacgctgtgatgcatgc--ggctgtggaatcaaaatttaacggacatgggaacatgtactgatttataactgaggatgtttgtgtgtgaaccagCTCTGGAACATCCGGAGGGGAGAGGAAGCTGATGCCGACCATCGCCGACGAGCTGGACAGGAGGTCGTTGCTGTATAGCCTGCAGATGCCGGTGATGAGC
upper sequence: Vv19s0014g04690.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G40860.1 (Glycine max), 3'ss of exon 1
gtattgttcgttgttggtaattggggtgagaggcttttcagaatgtgtactcaaatggattgaaactgaatgcggttgctttttatttgctttgctttgcagCTCGGGGACTTCTGGCGGGGAGAGGAAGCTGATGCCAACCATAGAAGAAGAGCTGGAGAGGAGGTCATTGCTTTATAGTCTGCTCATGCCGGTGATGAGC
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gatctctccatccttttttcttgatcccttcacccatcaaaccaaccttataatttttgttctaatc--atgtgttcatatttttttttttgtgtgtggcagTTCTGGGACATCAGGAGGTGAGAGGAAGCTGATGCCAACAATTGAAGAAGAGCTAGGTAGAAGGAGTTTGCTGTATAGCCTTCTGATGCCAGTGATGAGC
upper sequence: Vv19s0014g04690.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G17510.1 (Glycine max), 3'ss of exon 1
gtattgttcgttgttggtaattggggtgagaggcttttcagaatgtgtactcaaatggattgaaactgaat-gcggttgctttttatttgctttgctttgcagCTCGGGGACTTCTGGCGGGGAGAGGAAGCTGATGCCAACCATAGAAGAAGAGCTGGAGAGGAGGTCATTGCTTTATAGTCTGCTCATGCCGGTGATGAGC
|| | | || | || | | | | || || || || || | | | ||| ||||| | || | | | || || ||||| || || || |||||||||||||||||||| || ||||||||||| | ||| ||| ||||| || || || | ||||| |||||| |
-aatctcccaatcttttttttttctttcaattatcaaatcaatgttataatcccattttttttttctaatttggtgttcatttttgtgtgtgtggggct--agTTCTGGGACATCAGGAGGTGAGAGGAAGCTGATGCCAACAATTGAAGAAGAGCTAGGGAGAAGGAGTTTGCTCTACAGCCTCTTGATGCCAGTGATGTCC
upper sequence: Vv19s0014g04690.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G27260.1 (Arabidopsis thaliana), 3'ss of exon 1
--gtattgttcgttgttggtaattggggtgagaggcttttcagaatgtgtactcaaatggattgaaactgaatgcggttgctttttatttgctttgctttgcagCTCGGGGACTTCTGGCGGGGAGAGGAAGCTGATGCCAACCATAGAAGAAGAGCTGGAGAGGAGGTCATTGCTTTATAGTCTGCTCATGCCGGTGATGAGC
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gattatttttc-ttctgggtacccaaaaggttgaaactataataactt-tctcaaaacttaaagaggct-aacaaggtt-ttatatatatgttctgtttggcagCTCTGGGACATCTGGTGGGGAGAGGAAGCTAATGCCAACAATCGAAGAGGAGCTAGACAGGAGATCACTCCTCTACAGTCTCTTGATGCCTGTGATGAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactcaaatggattgaaactgaatgcggttgctttttatttgctttgctttgcagCTCGGGGACTTCTGGCGGGGAGAGGAAGCTGATGCCAACCATAGAAGAAGAGCTGGAGAGGAGGTCATTGCTTTATAGTCTGCTCATGCCGGTGATGAGC
ctttttatttgcttt CT-rich tract
tttttatttgcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgttcgttgttggtaattggggtgagaggcttttcagaatgtgtactcaaatggattgaaactgaatgcggttgctttttatttgctttgctttgcagCTCGGGGACTTCTGGCGGGGAGAGGAAGCTGATGCCAACCATAGAAGAAGAGCTGGAGAGGAGGTCATTGCTTTATAGTCTGCTCATGCCGGTGATGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG