Sequence
atgc intronic sequence ATGC exonic sequence...atggagttctagccattttctgaagactcatttttggaaacagttttttgagtttaaatttccaaattttatagcttattttctcattttatggattcagGTACTGGTGACATTGGCAAATTCATATTGGTTGATCATGTCAAGTCTTTATGCAGCCAAAAGGTTGCATGATGCTATGCTTGGCTCTATTTTAAGAGCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os04g52900.2 (Oryza sativa), 3'ss of exon 22
atggagttctagccattttctgaagactcatttttgga--aacagttttttgagtttaaatttccaaat-tttatagcttattttctcattttatggatt-cagGTACTGGTGACATTGGCAAATTCATATTGGTTGATCATGTCAAGTCTTTATGCAGCCAAAAGGTTGCATGATGCTATGCTTGGCTCTATTTTAAGAGCTC
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--gtacttgta-ccatgattttcatcttcttttcttgattagaatttgaatttatccagttgatcacatgctggctgcaaaatatgacattgtgttgtttatagGTTCTAGTCACTCTAACGAATTCTTATTGGCTGATCACATCAAGTCTTCGAGCAGCCAAGAGGTTGCATGATGCCATGCTCCGGTCTATATTAAGAGCTC
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G084181_T01 (Zea mays), 3'ss of exon 21
atggagttctagccattttctgaagactcatttttggaaacagttttttgagtttaaatttccaaattttatagcttattttctcattttatggattcagGTACTGGTGACATTGGCAAATTCATATTGGTTGATCATGTCAAGTCTTTATGCAGCCAAAAGGTTGCATGATGCTATGCTTGGCTCTATTTTAAGAGCTC
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--gtatttctacccattgcttacatattcagtatttcacaccctcttgtgtgtctatgattaatgggatttgagctaataaattgaaactattgggttagGTTCTAGTCACACTCTCAAATTCATACTGGTTGATTATATCAAGTCTTCGGGCAGCCAAAAGGCTTCATGATGCCATGCTCCGATCAATATTGAGAGCTC
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 21
atggagttctagccattttctgaagactcatttttggaaacagttttttgagtttaaatttccaaattttatagcttattttctcattttatggattcagGTACTGGTGACATTGGCAAATTCATATTGGTTGATCATGTCAAGTCTTTATGCAGCCAAAAGGTTGCATGATGCTATGCTTGGCTCTATTTTAAGAGCTC
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------gtataattctcttataaaa--tcactgttacagcctgcattt--gatttaaatgcatctatggaatatattgttaatttggaattgtgtttcagGTCTTGGTGACTTTAACAAATTCTTATTGGTTAATCATATCAAGTCTTTATGCTGCCAGAAGGTTGCACGAAGCCATGCTTAGCTCCATATTACGAGCTC
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA15G09900.1 (Glycine max), 3'ss of exon 21
atggagttctagccattttctgaagactcatttttggaaacagttttttgagtttaaatttccaaattttatagcttattttctcattttatggattcagGTACTGGTGACATTGGCAAATTCATATTGGTTGATCATGTCAAGTCTTTATGCAGCCAAAAGGTTGCATGATGCTATGCTTGGCTCTATTTTAAGAGCTC
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------gtataattctcttataaaatcactgtacagaatgcatttgattggact-gcatctatgga----acaaattattaatttggaattgagtttcagGTTTTGGTGACTTTAACAAATTCTTATTGGTTAATCATATCAAGTCTTTATGCTGCTAGAAGGTTGCACGAAGCCATGCTTAGCTCCATATTACGAGCTC
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT1G30400.1 (Arabidopsis thaliana), 3'ss of exon 22
atggagttctagccattttctgaag-actcatttttggaaaca---gttttttgagtttaaatttccaaattttatagcttattttctcattttatggattcagGTACTGGTGACATTGGCAAATTCATATTGGTTGATCATGTCAAGTCTTTATGCAGCCAAAAGGTTGCATGATGCTATGCTTGGCTCTATTTTAAGAGCTC
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gtttcttctgcgccaaagtatcgagcaaacaaaatggaaaataaaaggatacagagagcaaaacgttta-tgctaagacgtatttcttcttggttt---ttcagGTCTCTGTGACATTGATCAATTCATATTGGTTGATTATGTCCAGTCTATATGCAGCTAAAAAGATGCATGATGCTATGCTTGGTTCCATACTAAGGGCTC
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT2G34660.2 (Arabidopsis thaliana), 3'ss of exon 22
--atggagttctagccattttctgaagactcatttttggaaacagttttt-tgagtttaaatttccaaattttatagcttattttctcattttatggattcagGTACTGGTGACATTGGCAAATTCATATTGGTTGATCATGTCAAGTCTTTATGCAGCCAAAAGGTTGCATGATGCTATGCTTGGCTCTATTTTAAGAGCTC
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ttctacttttgtgattttactttgagaatccaaaggtggaggtagaaaaggttagtaaagaatt---gatttttttgctgagactctttcttcttgcttacagGTTTTGGTGACATTGACCAATTCATATTGGTTGATTATGTCCAGTCTTTATGCAGCTAAGAAGTTACACGACAATATGCTTCATTCCATACTGAGGGCCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgagtttaaatttccaaattttatagcttattttctcattttatggattcagGTACTGGTGACATTGGCAAATTCATATTGGTTGATCATGTCAAGTCTTTATGCAGCCAAAAGGTTGCATGATGCTATGCTTGGCTCTATTTTAAGAGCTC
ttttctcattttat CT-rich tract
tttaaatttccaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggagttctagccattttctgaagactcatttttggaaacagttttttgagtttaaatttccaaattttatagcttattttctcattttatggattcagGTACTGGTGACATTGGCAAATTCATATTGGTTGATCATGTCAAGTCTTTATGCAGCCAAAAGGTTGCATGATGCTATGCTTGGCTCTATTTTAAGAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - ctagcca
- - - - - - - - - - tgaagac
- - - - - - - - - - - - - - - - - -ggaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaaatt