Sequence
atgc intronic sequence ATGC exonic sequencegtaatgagaattatcatcattttcttcattttttaccattcattataataggggaaaaagtttctgaggttacatacgaactgtggtggttgcaattagtgtatcattttgagaagttgtgtgttgtgttgcagGTGGTCAGCCATAGCTACTCATCTTCCCGGGAGAACAGATAATGAAATCAAGAACTTCTGGAACACCCATCTGAAGAAGAAGCTTATGCAAATGGGGATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g01710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G01150.1 (Glycine max), 3'ss of exon 1
gtaatgagaattatcatcattttcttcattttttaccattcattataataggggaaaaagtttctgaggttacatacgaactgtggtggttgcaattagtgtatcattttgagaagttgtg--tgttgtgttgcagGTGGTCAGCCATAGCTACTCATCTTCCCGGGAGAACAGATAATGAAATCAAGAACTTCTGGAACACCCATCTGAAGAAGAAGCTTATGCAAATGGGGATT
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--------------------------------------------------------------------gtaatccccaaacc-tcttcattattatatata-attaattggagtgtttaatattgttaattattagGTGGGCGGCTATAGCATCTCATCTGCCAGGGAGGACTGATAATGAAATAAAGAATTTGTGGAACACGCATTTAAAGAAGAAGCTAATGCAAATGGGGTTA
upper sequence: Vv16s0039g01710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G44370.1 (Glycine max), 3'ss of exon 2
-----------------------------------------------------gtaatgagaattatcatcattttcttcattttttaccattcattataataggggaaaaagtttctgaggttacatacgaactgtggtggttgcaattagtgtat-cattttgagaagttgtgtgttgtgttgcagGTGGTCAGCCATAGCTACTCATCTTCCCGGGAGAACAGATAATGAAATCAAGAACTTCTGGAACACCCATCTGAAGAAGAAGCTTATGCAAATGGGGATT
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gtaatccccaaatcttattcttgattatctagtttataattgaagatcaacatccaaaagcaagcgtaaatgaaaaatgtttaatttacccttagactatatatatgtcaaaattgtggagtacttatacaaagagtgatcatcgtgattttaatatatatgttgtgtttccat-tgttaattactagGTGGGCGGCTATAGCATCTCATCTACCAGGGAGGACTGATAATGAAATAAAGAATTTGTGGAACACCCATTTAAAGAAAAAGCTAATGCAAATGGGGTTA
upper sequence: Vv16s0039g01710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G11570.1 (Glycine max), 3'ss of exon 1
------------------------------------gtaatgagaattatcatcattttcttcattttttaccattcattataataggggaaaaagt-ttctgaggttacatacgaactgtggtggttgcaattagt--gtatcattttgagaagttgtgtgttgtgttgcagGTGGTCAGCCATAGCTACTCATCTTCCCGGGAGAACAGATAATGAAATCAAGAACTTCTGGAACACCCATCTGAAGAAGAAGCTTATGCAAATGGGGATT
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gtaagttacttactattccttcgattgatttcattactaaatggaaagcttacttagaatgaaacatctcctcagttaggcttatatgtatgtacatgttttgttaatatttttcatatataatactacataataatcaaaatcatttttgatttatttccaatatatattagGTGGTCGGCTATAGCAGGTCATCTGCCAGGTAGAACTGATAATGAAATTAAGAATTTCTGGAACACTCATTTAAAGAAAAAGCTTCTGCAAATGGGGTTA
upper sequence: Vv16s0039g01710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G01960.1 (Glycine max), 3'ss of exon 2
gtaatgagaattatcatcattttcttcattttttaccattcattataataggggaaaaagtttctgaggttacatacgaactgtggtggttgcaattagtgtatcattttgagaagttgtgtgttgtgttgcagGTGGTCAGCCATAGCTACTCATCTTCCCGGGAGAACAGATAATGAAATCAAGAACTTCTGGAACACCCATCTGAAGAAGAAGCTTATGCAAATGGGGATT
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-----gtaagttactat-attcattcgatttc--attactaaatggcaagcttaatatttttcataatactaataccgtactatataaatt--aaatgattttttatttgtatatgctttatttccaatattagGTGGTCTGCTATAGCAGGTCATCTGCCAGGTAGGACTGATAATGAAATTAAGAATTTCTGGAACACTCATTTAAAGAAAAAGCTTCTGCAAATGGGGTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgtggtggttgcaattagtgtatcattttgagaagttgtgtgttgtgttgcagGTGGTCAGCCATAGCTACTCATCTTCCCGGGAGAACAGATAATGAAATCAAGAACTTCTGGAACACCCATCTGAAGAAGAAGCTTATGCAAATGGGGATT
tatcatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgagaattatcatcattttcttcattttttaccattcattataataggggaaaaagtttctgaggttacatacgaactgtggtggttgcaattagtgtatcattttgagaagttgtgtgttgtgttgcagGTGGTCAGCCATAGCTACTCATCTTCCCGGGAGAACAGATAATGAAATCAAGAACTTCTGGAACACCCATCTGAAGAAGAAGCTTATGCAAATGGGGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC