Sequence
atgc intronic sequence ATGC exonic sequence...tgcttcctcctccacccctccttggaggatgaactgtggcaaaacaggacaactagattttgaaaatggtaagtgaactaaccaataactgtctctccagATGATGGAATTATACCTGGCAGACCAGTTCCACCTGAATGCCATGCGGAGATTCATACAGATTATGATGGTGCTGCTGTCAGATGGGGCCTTACCCACCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g52410.1 (Oryza sativa), 3'ss of exon 5
-----------------------------------------------tgcttcctcctccacccctccttggaggatg-aactgtggcaaaacaggacaact--agattttgaaaatggtaagtgaact---aaccaataactgtctctccagATGATGGAATTATACCTGGCAGACCAGTTCCACCTGAATGCCATGCGGAGATTCATACAGATTATGATGGTGCTGCTGTCAGATGGGGCCTTACCCACCA
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gtctcttttttgtgtttatttatgaagttcagagcattcatggcctcagttcaaacaattgtgtcctttttacctttgtagttgtagttatagactatattttgaagttctcaaaatgagattttagtttccaacctatgttaattgttgcagAAGAAGAGATAATAGCTGGTCCACCTTTGCCCTCACAATGCAATGCTGAGCTACATACTGATTACGATGGTGCTGCTGTTAGATGGGGCTTAACACACCC
upper sequence: Vv18s0001g10750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G101412_T01 (Zea mays), 3'ss of exon 5
------------------------------------------tgcttcctcctccacccctccttgga--ggatgaactgtggcaaaacaggacaactagattttgaaaatggtaagtgaacta-accaataactgtctctccagATGATGGAATTATACCTGGCAGACCAGTTCCACCTGAATGCCATGCGGAGATTCATACAGATTATGATGGTGCTGCTGTCAGATGGGGCCTTACCCACCA
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gtttgttcttatatggtcatgcaatgtgtttgtgctggtttatgatgtttagagcacttggtgtcaagttggatcctttgtg-tacttttgaatcgcccgaagaaagatttgttttatgatttccaatgttctctactattgcagAAGAAGAGATAGTAGCAGGTCCACCCTTGTCCCCACAATGTAATGCTGAGCTACATACAGATTATGATGGTGCCGCTGTTAGATGGGGTTTAACACACCA
upper sequence: Vv18s0001g10750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G384260_T01 (Zea mays), 3'ss of exon 3
------------------------------------------------------------------------tgcttcctcctccacccctccttggaggatgaactgtggcaaaacaggacaactagattttgaaaa---tggtaagtgaacta-accaataactgtctctccagATGATGGAATTATACCTGGCAGACCAGTTCCACCTGAATGCCATGCGGAGATTCATACAGATTATGATGGTGCTGCTGTCAGATGGGGCCTTACCCACCA-
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gtttgttcttgtatgggtcatgcattgtgtttgtgttggtttatatgatgtttagagcatttggtgtcaatttggatccttttt-gtacttacttgatgagttgattaaaatgtaacttttgaatcgcccttagaaagatttgatttgtgatttccaatgttctctactgttgcagAAGAAGAGATAGTAGCAGGTCCACCCTTGTCCCGACAATGTAATGCTGAGCTCCATACAGATTATGATGGTGCCGCTGTTAGATGGGAT-TAACGCACCAC
upper sequence: Vv18s0001g10750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G04000.1 (Glycine max), 3'ss of exon 5
tgcttcctcctccacccctccttggaggatgaactgtggcaaaacaggaca-----actagattttgaaaatggtaagt----gaactaaccaa-ta-actgtctctccagATGATGGAATTATACCTGGCAGACCAGTTCCACCTGAATGCCATGCGGAGATTCATACAGATTATGATGGTGCTGCTGTCAGATGGGGCCTTACCCACCA
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-----------acaatgcattatgcatgataaaatctggaagtagtgtgcatgtatattatttcttgcagaaatttattctttggacttaccaagtatacattctctccagAGGACGAGATCCTTCCTGGCAGACCTGTTTCACCCGAGTGCCATGCTGAACTGCACACAGATTATGATGGTGCTGCAGTAAGATGGGGTCTTACCTTCCA
upper sequence: Vv18s0001g10750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G04180.1 (Glycine max), 3'ss of exon 5
-----------------------------------------------------------------------------------tgcttcctcctccacccctccttggaggatgaactgtggcaaaacaggacaacta----gatttt-----gaaaatggtaagtgaactaaccaa-ta-actgtctctccagATGATGGAATTATACCTGGCAGACCAGTTCCACCTGAATGCCATGCGGAGATTCATACAGATTATGATGGTGCTGCTGTCAGATGGGGCCTTACCCACCA
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gtaatatcagtttcttcagtcgtaatatccattttctttttctattgtagttttccccttatgcatcacttgagtggtttcccggaatcagtgaacaatgcattatgcatgatagaatctggaagtagtgtgcatgtatattgatttcttgcagaaatttattcttggacttaccaagtatacattctctccagAGGAGGAGGTCCTTCCTGGCAGACCCGTTTCACCCGAGTGCCATGCTGAACTGCACACAGATTATGATGGCGCCGCAGTAAGATGGGGTCTTACCTTCCA
upper sequence: Vv18s0001g10750.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G33380.1 (Arabidopsis thaliana), 3'ss of exon 5
-----------------tgcttcctcctccacccctccttggaggatgaactgtggcaaaacaggacaactagattttgaaaatggtaagtgaactaaccaataactgtctctccagATGATGGAATTATACCTGGCAGACCAGTTCCACCTGAATGCCATGCGGAGATTCATACAGATTATGATGGTGCTGCTGTCAGATGGGGCCTTACCCACCA---
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gtaatgttttcaaaattttctacattcttgatctctgcttttgcatttatttg-ggtggaaaagtgtggtgacactg-gcgaattcaaatctcatgaagttgtg--cattttttccgtagAGGAAATATTGGCAGGCAGACCAGTGCCAGCTGTATGTAATGCAGAGCTTCACACAGATTATGGTGGTGCTGCAGTGAGATGGGGGCTTACACATCATAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggacaactagattttgaaaatggtaagtgaactaaccaataactgtctctccagATGATGGAATTATACCTGGCAGACCAGTTCCACCTGAATGCCATGCGGAGATTCATACAGATTATGATGGTGCTGCTGTCAGATGGGGCCTTACCCACCA
ctgtctctcc CT-rich tract
tagattttgaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcttcctcctccacccctccttggaggatgaactgtggcaaaacaggacaactagattttgaaaatggtaagtgaactaaccaataactgtctctccagATGATGGAATTATACCTGGCAGACCAGTTCCACCTGAATGCCATGCGGAGATTCATACAGATTATGATGGTGCTGCTGTCAGATGGGGCCTTACCCACCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - tcctcct
- - - - - - - -ccctcct
- - - - - - - - - - - - - - - - - - -ggcaaaa
- - - - - - - - - - - - - - - - - - - - - - -aggacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaccaa