Sequence
atgc intronic sequence ATGC exonic sequence...agccctgagacgagatatttcccaaatgtgttatttggagataatttcattcgtcttttttactcataatacttatgtatggtcaactgaacttgtgcagGTACAGTCGTCATGATAAACGCTCTAAATTGCCTGGGTGGATTCTGTCACATTTACGTGATGCACACCTGAATTTGAGCACTGACATGGCTTTGCATATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os05g05260.1 (Oryza sativa), 3'ss of exon 9
agccctgagacgagatatttcccaaatgtgttatttggagataatt-tcattcgtcttttttactc--ataatacttatgt-atggtcaactgaacttgtgcagGTACAGTCGTCATGATAAACGCTCTAAATTGCCTGGGTGGATTCTGTCACATTTACGTGATGCACACCTGAATTTGAGCACTGACATGGCTTTGCATATT
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--ttctaatttgtcacacgcatcctgtccatttccctgccttactggtgaccaagctttcatactccaggattgttaatatcatggt--atttctcacctgcagATACAGTCGCCATGATAAACGGTCTAAACTGCCTGGGTGGATACTGTCACACTTACATGATGCGCACCTAAATCTGAGCACTGATATGGCTTTGCATATA
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G097605_T01 (Zea mays), 3'ss of exon 9
-agccctgagacgagatatttcccaaatgtgttatttggagataatttcattcgtcttttttactcataatacttat--gtatggtcaactgaacttgtgcagGTACAGTCGTCATGATAAACGCTCTAAATTGCCTGGGTGGATTCTGTCACATTTACGTGATGCACACCTGAATTTGAGCACTGACATGGCTTTGCATATT
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gtgttcattttcttggtgcgttgttaatgttctatgtgaagttg---ttaattttctatgtgaagcgtcacatttcttggtaaattcctttctttctttacagATACAGTCGGCATGATAAACGGTCCAAGTTGCCTGGGTGGATACTCTCGCATTTGCATGATGCGCACCTAAATCTGAGCACTGATATGGCTCTCCATATA
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA16G28290.1 (Glycine max), 3'ss of exon 10
--agccctgagacgagatatttcccaaatgtgttatttggagataatttcattcgtcttttttactcata-atacttatgtatggtcaactgaacttgtgcagGTACAGTCGTCATGATAAACGCTCTAAATTGCCTGGGTGGATTCTGTCACATTTACGTGATGCACACCTGAATTTGAGCACTGACATGGCTTTGCATATT
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tgattgctccatttatggttttggcttctacttttctctatgacagtgtt-ctgacagtaaatagtaatacattgttggttataactt-ctgcactc-tgcagGTATAGTCGCCATGACAAACGTTCAAAATTGCCTAGTTGGATACTATCTCACTTACATGATGCCCACCTGAACTTGAGCACAGACATGGCTTTGCATATA
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G09080.1 (Glycine max), 3'ss of exon 10
agccctgagacgagatatttcccaaatgtgttatttggagataatttcattcgtcttttttactcataatacttatgtatggtcaactg-aacttgtgca-------gGTACAGTCGTCATGATAAACGCTCTAAATTGCCTGGGTGGATTCTGTCACATTTACGTGATGCACACCTGAATTTGAGCACTGACATGGCTTTGCATATT
| ||| || | || | | ||| | || | | ||| ||| || |||| | || || ||| | ||||| |||| |||| ||||||||||| ||||| || |||||||| | ||||| || || ||||||| ||| || |||||||| |||||||| ||||||||||||||| |
----tctacctatgatgattgctccatttatggttttggc----ttctacttttctctttgacagtaaatagtaatacattgtcggttataacttttgcactctgcagGTATAGTCGTCATGACAAACGTTCAAAATTGCCGAGTTGGATACTCTCTCATTTACATGACGCCCACCTGAACTTGAGCACAGACATGGCTTTGCATGTA
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G03190.2 (Arabidopsis thaliana), 3'ss of exon 10
---agccctgagacgagatatttcccaaatgtgttatttggagataatttcattcgtcttttttactcataatacttatgtatggtcaactgaacttgtgcagGTACAGTCGTCATGATAAACGCTCTAAATTGCCTGGGTGGATTCTGTCACATTTACGTGATGCACACCTGAATTTGAGCACTGACATGGCTTTGCATATT
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cgtaggacagaagagagacacagatatatgcttatgttggtttataatgtcacatttctatggt-ctaacaatacactgcaattgatggtaaaacttg--cagATACAGCCGTCATGATAAGCGGTCCAAACTACCTGGTTGGATACTTTCGCATCTGCGTGATGCACACTTGAATCTAAGCACTGATATGGCTATTCACATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcattcgtcttttttactcataatacttatgtatggtcaactgaacttgtgcagGTACAGTCGTCATGATAAACGCTCTAAATTGCCTGGGTGGATTCTGTCACATTTACGTGATGCACACCTGAATTTGAGCACTGACATGGCTTTGCATATT
ttttttactcataata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agccctgagacgagatatttcccaaatgtgttatttggagataatttcattcgtcttttttactcataatacttatgtatggtcaactgaacttgtgcagGTACAGTCGTCATGATAAACGCTCTAAATTGCCTGGGTGGATTCTGTCACATTTACGTGATGCACACCTGAATTTGAGCACTGACATGGCTTTGCATATT
-gccctga
- - - - - - - - - - cccaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgg