Sequence
atgc intronic sequence ATGC exonic sequence...ccaaaagtcactcttttctcaaaatacgaagatagttgcacaattcttgtcatctttgcttttggaattcttggtaaatcacggtacttttttggtgcagACTGCTGATTTCTTCCGAGGTGACAATCCTGAAGGCATGGAGGCCCGCAATGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 14
--------ccaaaagtcactcttttctcaaaatacgaagatagttgcacaattcttgtcatctttgcttttggaattcttggtaaatcacggtacttttttggtgcagACTGCTGATTTCTTCCGAGGTGACAATCCTGAAGGCATGGAGGCCCGCAATGAG
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tgattccctttctaactgttttattcttgaaata--aagat-gttgcactagcct-gtcatgttt-ccttgggtaatcttaatca--cgtaatattcttctt-tgcagTCTGCTGACTTCTTTCGAGCTGACAATCCTGAAGGCGTGGAGGCACGCAATGAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 10
ccaaaagtcactcttttctcaaaatacgaagatagttgcacaatt---cttgtcatctttg---cttttggaattcttggtaaatcacggtacttttttggtgcagACTGCTGATTTCTTCCGAGGTGACAATCCTGAAGGCATGGAGGCCCGCAATGAG
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tttctaaatgttttattcttgaaata--aagat-gttgcacacttgcactagccggccatgtttccttgggtaatcttaatcatgtaatattcttctttg---cagTCTGCTGATTTCTTTCGAGCTGACAATCCGGAAGGCATGGAGGCACGGAATGAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G37520.3 (Glycine max), 3'ss of exon 8
--ccaaaagtcactcttttctcaaaatacgaagatagttgcacaattcttgtcatctttgcttttggaattcttggtaaatcacggtac-ttttttggtgcagACTGCTGATTTCTTCCGAGGTGACAATCCTGAAGGCATGGAGGCCCGCAATGAG
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ttccctggtttatgttagtttcattcttggactcatgatgttatggtactgtcatgctt--tctaggaaaactta-caatccatgtcatattcttctctgcagTCTGCTGATTTCTTTCGAGCTGACAATCCTGAAGGTGTGGAGGCACGTAATGAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G37520.1 (Glycine max), 3'ss of exon 16
--------------------------------------ccaaaagtcactcttttctcaaaatacgaagatagttgcacaattcttgtcatctttgcttttggaattcttggtaaatcacggtac-ttttttggtgcagACTGCTGATTTCTTCCGAGGTGACAATCCTGAAGGCATGGAGGCCCGCAATGAG
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tcatccattgaaatgtcattaaccatgggtgcttgattccctggtttatgttagtttcattcttggactcatgatgttatggtactgtcatgctt--tctagGAAAACTTA-CAATCCATGTCATATTCTTCTCTGCAGTCTGCTGATTTCTTTCGAGCTGACAATCCTGAAGGTGTGGAGGCACGTAATGAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G39390.1 (Glycine max), 3'ss of exon 8
--ccaaaagtcactcttttctcaaaatacgaagatagttgcacaattcttgtcatctttgcttttggaattcttggtaaatcacggtacttttttggtgcagACTGCTGATTTCTTCCGAGGTGACAATCCTGAAGGCATGGAGGCCCGCAATGAG
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ttccctggtttatgttagtttcattcttggaatcatgatgttatggtactgttatgctttctaggaaaacttacaatacatgtca-tattcttcta-tgcagTTTGCTGATTTCTTTCGAGCTGACAATCCTGAAGGTGTGGAGGCACGTAACGAG
upper sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 8
ccaaaagtcactcttttctcaaaatacgaagatagttgcacaattcttgtcatctttgcttttggaattcttggtaaatcacggtacttttttggtgcagACTGCTGATTTCTTCCGAGGTGACAATCCTGAAGGCATGGAGGCCCGCAATGAG
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------gtaaggcttggttcttaaaactgagtt--ttata-agtttctgtcctcctt--ttagacgatttttgattgacaacg-catgagccttttgtagAGTGCTGATTTCTTCCGAGCTGATAATCCTGAAGGTGTAGAGGCACGGACTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgtcatctttgcttttggaattcttggtaaatcacggtacttttttggtgcagACTGCTGATTTCTTCCGAGGTGACAATCCTGAAGGCATGGAGGCCCGCAATGAG
tactttttt CT-rich tract
tactttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccaaaagtcactcttttctcaaaatacgaagatagttgcacaattcttgtcatctttgcttttggaattcttggtaaatcacggtacttttttggtgcagACTGCTGATTTCTTCCGAGGTGACAATCCTGAAGGCATGGAGGCCCGCAATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
ccaaaag
- - - - - - - - - -caaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatcac