Sequence
atgc intronic sequence ATGC exonic sequence...ggcaattctaatttctactgttcctcacccaactgcggagaccattattttatgcttcatttctttaactagccttccaacgtactctttcgtaatccagATTTTTGAAGGCGAGGAAATTTGATCTTGAGAAAACAAAACAAATGTGGATTGATATGCTTCAATGGAGGAAGGACTTCGGTGCTGACACAATTATGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g02400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g24430.2 (Oryza sativa), 3'ss of exon 3
ggcaattctaatttctactgttcctcacccaactgcgg-agaccattattttatgcttcatttctt---taactagccttccaacgtactctttcgtaatccagATTTTTGAAGGCGAGGAAATTTGATCTTGAGAAAACAAAACAAATGTGGATTGATATGCTTCAATGGAGGAAGGACTTCGGTGCTGACACAATTATGGAG
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-------------------gtgtataatctgaaaatagcacatcatgttgttatttatagtttcttatgtgaaaaaagtattactaaaatttgagattacatagGTTTTTGAAGGCAAGAAAGTTTGATGTGGAGAAGGCAAAGCAAATGTGGGTTGATATGCTGCAGTGGAGAAAGGAATTCGCTGCAGATACCATTCTTGAG
upper sequence: Vv04s0023g02400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G05980.1 (Glycine max), 3'ss of exon 1
ggcaattctaat-ttctactgttcctcacccaactgcggagaccattattttatgcttcatttcttta-actagccttccaacgtac-tctttcgtaatccagATTTTTGAAGGCGAGGAAATTTGATCTTGAGAAAACAAAACAAATGTGGATTGATATGCTTCAATGGAGGAAGGACTTCGGTGCTGACACAATTATGGAG
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-atagaagaaacattttaaaggaccaaatatta-tatcgattcaattggtt-atgagtaggaacttgacacttttcctgcattatttgtattttgttgaacagATTCTTGAAGGCCAGGAAATTTGAACTTGAGAAATCTAAGCAAATGTGGTCTGACATGCTTCAATGGAGGAAGGAATTTGGTGCTGACACCATCAGTGAG
upper sequence: Vv04s0023g02400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G24670.1 (Glycine max), 3'ss of exon 1
ggcaattctaat-ttctactgttcctcacccaactgcggagaccattattttatgcttcatttctttaactagccttccaacgtactc---tttcgtaatccagATTTTTGAAGGCGAGGAAATTTGATCTTGAGAAAACAAAACAAATGTGGATTGATATGCTTCAATGGAGGAAGGACTTCGGTGCTGACACAATTATGGAG
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-atagaaaaaacattttaagggaccaaatatta-tattgattcaattggtt-atgagtaggaactt-gacacatttcctgcattacttgcattttgttgaacagATTCTTGAAGGCCAGGAAATTTGACCTTGAGAAATCTAAGCAAATGTGGTCTGACATGCTTCAATGGAGGAAGGAATTTGGTGCTGACACCATCACTGAG
upper sequence: Vv04s0023g02400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G07660.1 (Glycine max), 3'ss of exon 1
ggcaattctaatttctactgttcctcacccaactgcggagaccattattttatgcttcatttctttaactagccttccaacgtactc---tttcgtaatccagATTTTTGAAGGCGAGGAAATTTGATCTTGAGAAAACAAAACAAATGTGGATTGATATGCTTCAATGGAGGAAGGACTTCGGTGCTGACACAATTATGGAG
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--gtgtcctagaatggatatgcacttgcatatcatgtcatgtcattgattaaaataacaact-tgaaacttttcttccactatttttgtattttgttgtatagATTCCTGAAGGCTAGGAAATTTGATATCGAGAAAACAAAGCAAATGTGGTCTGAAATGCTCAAATGGAGGAAGGAATTTGGTGCTGACACCATCACGGAG
upper sequence: Vv04s0023g02400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G37640.1 (Glycine max), 3'ss of exon 1
ggcaattctaatttctactgttcctcacccaactgcggagaccattattttatgcttcatttctttaactagcctt---ccaacgtactctttcgtaatccagATTTTTGAAGGCGAGGAAATTTGATCTTGAGAAAACAAAACAAATGTGGATTGATATGCTTCAATGGAGGAAGGACTTCGGTGCTGACACAATTATGGAG
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--ttgtcctagaatgggtgtgtacttgcatatcatgtcatgtcattgattaaaataagaac-ctgaaacttttcttacactaattttgtattttcttgtatagATTCCTGAAGGCCAGGAAATTTGATATTGAGAAAACAAAGCAAATGTGGTCTGAAATGCTCAAATGGAGGAAGGAGTTTGGTGCCGACACCATCACGGAG
upper sequence: Vv04s0023g02400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G18180.1 (Arabidopsis thaliana), 3'ss of exon 2
ggcaattctaatttctactgttcctcacccaactgcggagaccattattttatgcttcatttctttaactagccttccaacgtactctttcgtaatccagATTTTTGAAGGCGAGGAAATTTGATCTTGAGAAAACAAAACAAATGTGGATTGATATGCTTCAATGGAGGAAGGACTTCGGTGCTGACACAATTATGGAG
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--------------------------gtctatct-tggaatatatcatgccaatgtgcatctatgtccattattagcttgaatgtttcttcatttttcagGTTTTTGAAGGCTAGAAAATTTGATCTTGAGAAAACAAATCAAATGTGGTCTGACATGCTCCGATGGAGGAAGGAGTTTGGTGCTGACACAGTTATGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattttatgcttcatttctttaactagccttccaacgtactctttcgtaatccagATTTTTGAAGGCGAGGAAATTTGATCTTGAGAAAACAAAACAAATGTGGATTGATATGCTTCAATGGAGGAAGGACTTCGGTGCTGACACAATTATGGAG
ctttaac putative branch site (score: 3)
tactctttc putative PPT
atttctttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggcaattctaatttctactgttcctcacccaactgcggagaccattattttatgcttcatttctttaactagccttccaacgtactctttcgtaatccagATTTTTGAAGGCGAGGAAATTTGATCTTGAGAAAACAAAACAAATGTGGATTGATATGCTTCAATGGAGGAAGGACTTCGGTGCTGACACAATTATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - ctactgt
- - - - - - - - - - - -ctcaccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttcca