Sequence
atgc intronic sequence ATGC exonic sequence...ttccttgccgattccttggtgtttattccttttcttttgtgttttttttttctcctggatgttggaattgcaatcttaatgacatgtgcaacatatccagTGCATCTTCCGCAAGCCTAAGGAATGCAAGGAGCGGCACAAAATTTTAATGGATAGGACTGCTGGTGATGGGGCTGATAGTGCTGAAGATTCAGGGTCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA16G14060.1 (Glycine max), 3'ss of exon 18
ttccttgccgattccttggtgtttattccttttcttttgtgttttttttttctcctggatgttggaattgcaatcttaatgacatgt-gcaacatatccagTGCATCTTCCGCAAGCCTAAGGAATGCAAGGAGCGGCACAAAATTTTAATGGATAGGACTGCTGGTGATGGGGCTGATAGTGCTGAAGATTCAGGGTCAT
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-aagctttaaatgctaaaatttatagttaatttgtaatttggtagtttaattaggatttaattagattttttccgataatgacattttataatatttccagTGCGTCTTTCGGAAACCAAAAGAATGCAAGGAGCGTCATAAAAATTTAATGGATAGAACTACCGGGGATGGTGCAGATAGTGCTGAAGATTCAGGGTCTT
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA03G18730.1 (Glycine max), 3'ss of exon 7
ttccttgccgattccttggtgtttattccttttcttttgtgttttttttttctcctggatgttggaattgcaatcttaatgacatgt-gcaacatatccagTGCATCTTCCGCAAGCCTAAGGAATGCAAGGAGCGGCACAAAATTTTAATGGATAGGACTGCTGGTGATGGGGCTGATAGTGCTGAAGATTCAGGGTCAT
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-gaagctttaaatgctcaaattttatttaatttgtaatttggtagtttaattggtatttaatcagatttttgccgataatgacattttacaacatttccagTGCGTCTTTCGGAAACCAAAAGAATGCAAGGAGCGTCATAAGACTTTAATGGATAGAACTACCGGGGATGGTGCAGATAGTGCTGAAGATTCAGGGTCTT
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA08G46710.1 (Glycine max), 3'ss of exon 19
----ttccttgccgattccttggtgtttattccttttcttttgtgttttttttttctcctggatgttggaattgcaatcttaatgacatgtgcaacatatccagTGCATCTTCCGCAAGCCTAAGGAATGCAAGGAGCGGCACAAAATTTTAATGGATAGGACTGCTGGTGATGGGGCTGATAGTGCTGAAGATTCAGGGTCAT
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gtcaatcatgactgaactgttctttcttttctcctttatttctcagctatcttt-ctcatggat-ctgtaattgaaggaatac--aattttgcaatatttccagTGTATCTTTCGGAAACCAAAAGAGTGCAAGGAGCGTCACAAAATTTTAATGGATAGAACTTCTGGGGATGGTGCAGATAGCGCGGAAGACTCAGGGTCTT
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT3G24880.1 (Arabidopsis thaliana), 3'ss of exon 15
--ttccttgccgattccttggtgtttattccttttcttttgtgttttttttttctcctggatgttggaattgcaatcttaatgacatgtgcaacatat--ccagTGCATCTTCCGCAAGCCTAAGGAATGCAAGGAGCGGCACAAAATTTTAATGGATAGGACTGCTGGTGATGGGGCTGATAGTGCTGAAGATTCAGGGTCAT
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atggttgtgttggata-ttgttgtccaggttattgctttctcgtatcagtgaacaactggtatttg---ttactggctgattgatttttccactgtttctccagTGTATATATCGCAATCCGACTGAGTGCAAGGACCGGCATAAGATTCTGATGGATAAAACTGCTGGTGATGGGGCTGATAGTGCAGAAGATTCAGGGAATT
upper sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT3G24870.1 (Arabidopsis thaliana), 3'ss of exon 16
--ttccttgccgattccttggtgtttattccttttcttttgtgttttttttttctcctggatgttggaattgcaatcttaatgacatgtgcaacatat--ccagTGCATCTTCCGCAAGCCTAAGGAATGCAAGGAGCGGCACAAAATTTTAATGGATAGGACTGCTGGTGATGGGGCTGATAGTGCTGAAGATTCAGGGTCAT
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atggttgtgttggata-ttgttgtccaggttattgctttctcgtatcagtgaacaactggtatttg---ttactggctgattgatttttccactgtttctccagTATATATATCGCAATCCGACTGAGTGCAAGGACCGGCATAAGATTCTGATGGATAAAACTGCTGGTGATGGGGCTGATAGTGCAGAAGATTCAGGGAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttctcctggatgttggaattgcaatcttaatgacatgtgcaacatatccagTGCATCTTCCGCAAGCCTAAGGAATGCAAGGAGCGGCACAAAATTTTAATGGATAGGACTGCTGGTGATGGGGCTGATAGTGCTGAAGATTCAGGGTCAT
tcttaat putative branch site (score: 3)
aatcttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttccttgccgattccttggtgtttattccttttcttttgtgttttttttttctcctggatgttggaattgcaatcttaatgacatgtgcaacatatccagTGCATCTTCCGCAAGCCTAAGGAATGCAAGGAGCGGCACAAAATTTTAATGGATAGGACTGCTGGTGATGGGGCTGATAGTGCTGAAGATTCAGGGTCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
ttccttg
- ccttgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtgc