Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcattttccactccaactcaaaatttctgaaaagcccattgtggaacaagacaattataattgaattattccatacaaccaaatgtgttgaagttttttgctataatctttgagttatgtagGTGGATCTGGTGGGAGGATATTATGATGCAGGTGACAATGTGAAGTTTGGCCTACCCATGGCATTCACCGTTACAATGATGTCATGGAGCATAGTGGAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os05g12150.1 (Oryza sativa), 3'ss of exon 1
gtaagttcattttccactccaactcaaaatttctgaa-aagcccattgtgg-aacaagacaattataattgaattattcc----atacaaccaaatgtgttgaagttttttgctat---aatctttgagtt----------atgtagGTGGATCTGGTGGGAGGATATTATGATGCAGGTGACAATGTGAAGTTTGGCCTACCCATGGCATTCACCGTTACAATGATGTCATGGAGCATAGTGGAGT
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------gtatgcaccattctaccttcaaatctttgatcaaaaccatgatgccatcaatggcattgtgttcaatttgttcaggagatatgatgagttgggttctaatggagtgcaatgcaaatgtttgtgtttttgtttgtctttcagGTTGATCTTGTTGGAGGTTATTATGATGCAGGGGACAATGTCAAGTTTGGGTTGCCAATGGCGTTCACGGTGACCATGATGTCGTGGAGCATATTAGAGT
upper sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G02610.1 (Glycine max), 3'ss of exon 1
gtaagttcattttccactccaactcaaaatttctgaaaagcccattgtggaacaagacaattataattgaattattccatacaaccaaatgtgttgaagtt----ttttgctataatctttgagttatgtagGTGGATCTGGTGGGAGGATATTATGATGCAGGTGACAATGTGAAGTTTGGCCTACCCATGGCATTCACCGTTACAATGATGTCATGGAGCATAGTGGAGT
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----------------------------------------------gtaagtttaagaactctt--ttactttagtttactcacccaaattctttctagtcctagttttcatgttgatgttaaattatgcagGTGGATCTAGTTGGAGGGTACTATGATGCAGGGGACAATGTGAAGTTCGGGTTACCCATGGCGTTTACCGTTACGATGATGTCGTGGAGCATCATTGAAT
upper sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G36930.1 (Glycine max), 3'ss of exon 1
gtaagttcattttccactccaactcaaaatttctgaaaagcccattgtggaacaagacaattataattgaattattccatacaaccaaatgtgttgaagttttttgctataatctttgagttatgtagGTGGATCTGGTGGGAGGATATTATGATGCAGGTGACAATGTGAAGTTTGGCCTACCCATGGCATTCACCGTTACAATGATGTCATGGAGCATAGTGGAGT
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-----------------------------------gtaagcttttcaactctttttttagtt-tagtttagtttctcactttcctcacccaaattcaggttacaaattattgatgttaaattatacagGTGGATCTAGTTGGAGGGTACTATGATGCAGGGGACAATGTGAAGTTCGGGTTACCCATGGCGTTTACCGTTACGATGATGTCGTGGAGCATCATTGAAT
upper sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G11050.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaagttcattttccactccaactcaaaatttctgaaaagcccattgtggaacaagacaattataattgaattattccatacaaccaaatgtgttgaagttttttgctataatctttgagttatgtagGTGGATCTGGTGGGAGGATATTATGATGCAGGTGACAATGTGAAGTTTGGCCTACCCATGGCATTCACCGTTACAATGATGTCATGGAGCATAGTGGAGT
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---------ttggccacctaaacgtcaaa------aggagctgatttttataacgtttaatta--atagtactacattatgtt------tattttaattacattttcgaaaaaatttgagc-----agGTGGATCTAGTGGGAGGATATTATGACGCCGGAGACAATGTGAAATTCGGGCTTCCGATGGCTTTCACGGTGACAACAATGTGTTGGAGCATCATAGAAT
upper sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S176_127V6.1 (Physcomitrella patens), 3'ss of exon 2
-----------------------------gtaagttcattttccactccaactcaaaatttctgaaaagcccat-----tgtggaacaa--gacaattataattgaattattccatacaaccaaatgtgttgaagttttttgctataatctttga--gttatgtagGTGGATCTGGTGGGAGGATATTATGATGCAGGTGACAATGTGAAGTTTGGCCTACCCATGGCATTCACCGTTACAATGATGTCATGGAGCATAGTGGAGT
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gtaagaccttcgtttcgcgttctagatgggtgactgttttatcttaagcatagaaaaagttgtgaagaggatgtagacatgctcgccagctgacaattaaatatgatatatgtaggatatagtcattggttcatttgctttacgattatttgtacttgtaatgtagGTGGATCTGGTTGGTGGTTATTACGATGCTGGTGACAATGTCAAGTTTGGCTTGCCTCTGGCATTCACTGTTACCATGCTGTCGTGGAGTGTTCTTGAGT
upper sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S53_97V6.1 (Physcomitrella patens), 3'ss of exon 1
gtaagttcattttccactccaactcaaaatttctgaaaagcccattgtggaaca--agacaattataattgaattattccatacaaccaaatgtgttgaagttttttgctataatctttgagttatgtagGTGGATCTGGTGGGAGGATATTATGATGCAGGTGACAATGTGAAGTTTGGCCTACCCATGGCATTCACCGTTACAATGATGTCATGGAGCATAGTGGAGT
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---------------------gatcg--gttgttagaatgcctctgctaatatattgtgcgattattttgtgttaattttttttttatcagtatgcatcagccgtgt----tatccttcg---ttggcagATTGACCTTACGGGCGGGTATTATGATGCTGGCGACAATGTGAAGTACGGACTTCCCATGGCATTCACCATCACCATGCTCTCCTGGAATGTCATTCAGT
upper sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ12750 (Selaginella moellendorffii), 3'ss of exon 1
gtaagttcattttccactccaactcaaaatttctgaaaagcccattgtggaacaagacaattataattgaattattccatacaaccaaatgtgttgaagttttttgctataatctttgagttatgtagGTGGATCTGGTGGGAGGATATTATGATGCAGGTGACAATGTGAAGTTTGGCCTACCCATGGCATTCACCGTTACAATGATGTCATGGAGCATAGTGGAGT
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--------atagatagctgcattcgaggatatct------ttccctttcggatgtgcctttgcgaattgagtactt-------------tgcgttgtggtgattgatggtggcgctggaactac-cagGTGGATTTGGTTGGAGGGTATTACGACGCGGGCGACAATGTCAAGTTTGGCCTGCCCATGGCCTTCACCATCACCATGATGTCGTGGAGCGCCATCGAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attccatacaaccaaatgtgttgaagttttttgctataatctttgagttatgtagGTGGATCTGGTGGGAGGATATTATGATGCAGGTGACAATGTGAAGTTTGGCCTACCCATGGCATTCACCGTTACAATGATGTCATGGAGCATAGTGGAGT
ttttttgctataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttcattttccactccaactcaaaatttctgaaaagcccattgtggaacaagacaattataattgaattattccatacaaccaaatgtgttgaagttttttgctataatctttgagttatgtagGTGGATCTGGTGGGAGGATATTATGATGCAGGTGACAATGTGAAGTTTGGCCTACCCATGGCATTCACCGTTACAATGATGTCATGGAGCATAGTGGAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG