Sequence
atgc intronic sequence ATGC exonic sequencegtaattatattgttgccttttccattccagattgtatatgaacgggttgcttgtgtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 3'ss of exon 5
gtaattatattgttgccttttccattccagattgtata-tgaacgggttgcttgt--gtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG
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gtgacagcatcagt-ctatgcatgtttgttgttgagcacttaatgtattttctactaatatttttaacagaagatcctttggtt--ctactaattatttaccagACCATGAACAAAGTCTTTGAGCATGCTGGAGATCTTGTCAACATCCGAGTTGCACATAATTTAATGCGACTTATTGCTGAAGGCTTTGGAGAGGAGGATG
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 5
gtaattatattgttgccttttccattccagattgtatatgaacgggttgcttgtgtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG
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gtaatcacatgagta--ttgtccaa--catattgt-caagcatcctttgtt---gcttcttgagagctgaactctt----tcttcctctattttcttacagACCATGAACAAAGTCTTTGAGCATGCCGGAGATCTTGTCAACATCAGAGTGGCGCACAATCTGATGCGGCTAATTGCTGAAGGCTTTGGAGAGGAGGATG
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G031352_T01 (Zea mays), 3'ss of exon 4
gtaattatattgttgccttttccattccag-attgtatatgaacgggttgcttgtgtttttttaccttttaatgcttagattttctcct----tatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG
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-----------------gttatcacatgagtattgtcctaaatattgtcatgcatcttttgttgcctcttgagagctgaaccttttcttcctctattctcttacagACCATGAACAGAGTTTTTGAGCATGCTGGAGATCTTGTCAACATCAGAGTGGCACACAATTTGATGCGGCTAATTGCTGAAGGCTTTGGAGATGAGGACG
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 4
gtaattatattgttgccttttccattccagattgtatatgaacgggttgcttgtgtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG
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gtaattgaaatagttgcctcaatattattgattttacatttttttgatgcatacattcattga-----taactaataatatctggtattatggttatgcagACCATGAATAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTGGCACATAATTTGATGCGGTTGATTGCTGAAGGATTTGGAGAGGACGATG
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 4
gtaattatattgttgccttttccattccagattgtatatgaacgggttgcttgtgtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG
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gtaactgaattacttgcctcaatactattgattttacatt------ttttttgcatacattcattgataactaataatatctggtg-ttatggttatgcagACCATGAATAAAGTTTTTGAGCATGCTGGAGATCTTGTTAATATTAAGGTGGCACATAATTTGATGCGGTTGATTGCTGAAGGATTTGGAGAGGATGATG
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G20260.1 (Glycine max), 3'ss of exon 4
gtaattatattgttgccttttccattccagattgtatatgaacgggttgcttgtgtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG
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gtaatggtgttgctgcatttat-gttcttgattttgaattatttatgt-tttgcaaacattcattgataaccaataataccttgttctt-tgattttgcagACCATGAATAAAGTCTTTGAGCATGCTGGAGATCTTGTGAATATTAAGGTGGCCCATAATTTAATGCGATTGATTGGTGAAGGATTTGGAGAGGATGATG
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G08320.1 (Glycine max), 3'ss of exon 4
gtaattatattgttgccttttccattccagattgtatatgaacgggttgcttgtgtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG
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gtaatggtgttgttgc-ttttatgttcttgattttgaattagttattt-tttgcaaacattcattgataaccaataataccttgttctt-tgattttgcagACCATGAATAAAGTCTTTGAGCATGCTGGAGATCTTGTGAATATTAAGGTGGCACATAATTTAATGCGATTGATTGGTGAAGGATTTGAAGAGGATGACA
upper sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G31730.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaattatattgttgccttttccattccagattgtatatgaacgggttgcttgtgtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG
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------gtagcaagccaacctccattgta-actgtggcctgacaataaacatatatactctttgtttctgacaga-agtttaactgtttctgtact-gcagATCATGAATAAAGTCTTCGAGCATGCAGGAGATCTGGTAAATATTAAAGTGGCACATAATCTGATGCGTTTGATTGCTGAAGGATTTGGAGAGGACGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcttgtgtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG
ttttaat putative branch site (score: 3)
ttttctccttatgt putative PPT
tttttttaccttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattatattgttgccttttccattccagattgtatatgaacgggttgcttgtgtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA