Sequence
atgc intronic sequence ATGC exonic sequence...aattttgtagtccaaagagctcaccaactacattcttcattaacttggaaagatgaaatatagtctatgatatgaaggctaattttttccttccaaacagGGACCGCAATACGTGTGCACAAATTTCTGGACATTTGTTTGCACAACTTGTAGTGGGATACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G043056_T01 (Zea mays), 3'ss of exon 2
aattttgtagtccaaagagctcaccaactacattct-tcattaacttggaaag-atgaaatatagtctatgatatgaaggctaattttttccttccaaacagGGACCGCAATACGTGTGCACAAATTTCTGGACATTTGTTTGCACAACTTGTAGTGGGATACA
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acatatcttgctaatatgttacaagagtaatattttgttagtgcctcctctactgttccacctgaaggaaaaaat-aacactgatatgctgattt-gaacagGGACCACAATATGTCTGCACAAATTTCTGGACCTTTGTTTGTACCAATTGCAGTGGATCACA
upper sequence: Vv11s0016g04210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G35310.1 (Glycine max), 3'ss of exon 2
aattttgtagtccaaagagctcaccaactacattcttca--ttaacttggaaagatgaaatatagtctatgatatgaaggc--taattttttccttccaaacagGGACCGCAATACGTGTGCACAAATTTCTGGACATTTGTTTGCACAACTTGTAGTGGGATACA
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---attgcattcttctgaacctagctaggaaattttttaatttgatgttgaggtttgagac-tagtttgttgcattaaatccttttttctttctctcttgttagGGACCACAATATGTGTGCACAAATTTCTGGACGTTTGTTTGCACTAACTGTAGCGGAATACA
upper sequence: Vv11s0016g04210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G09750.2 (Glycine max), 3'ss of exon 2
---aatt---ttgtagtccaaagagctcaccaactacattcttcattaacttggaaagatgaaatatagtctatgatatgaaggctaattttttccttccaaacagGGACCGCAATACGTGTGCACAAATTTCTGGACATTTGTTTGCACAACTTGTAGTGGGATACA
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agcattttgattgcgttcttcagaacctagaatggaaattattgc---atttgatattgtgac---tggtcttttatattaattatcttcttttctcttttgaaagGGACCACAATATGTGTGCACAAACTTCTGGACGTTTGTTTGCACAAACTGCAGTGGAATACA
upper sequence: Vv11s0016g04210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G04420.2 (Glycine max), 3'ss of exon 1
aattttgtagtccaaagagctcaccaactacattcttca--ttaacttggaaagatgaaatatagtctatgatatgaaggc--taattttttccttccaaacagGGACCGCAATACGTGTGCACAAATTTCTGGACATTTGTTTGCACAACTTGTAGTGGGATACA
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---attgcattcttctgaatctagctaggaaattgttgaatttgatgttgatatttgagac-tagtttgctgcattaaatccttttttctttctctcttgttagGGACCACAATATGTTTGCTCAAATTTCTGGACGTTTGTTTGCATTAACTGTAGCGGAATACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggaaagatgaaatatagtctatgatatgaaggctaattttttccttccaaacagGGACCGCAATACGTGTGCACAAATTTCTGGACATTTGTTTGCACAACTTGTAGTGGGATACA
ggctaat putative branch site (score: 3)
ctaattttttccttcc CT-rich tract
taatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattttgtagtccaaagagctcaccaactacattcttcattaacttggaaagatgaaatatagtctatgatatgaaggctaattttttccttccaaacagGGACCGCAATACGTGTGCACAAATTTCTGGACATTTGTTTGCACAACTTGTAGTGGGATACA
- - - - - -ccaaaga
- - - - - - - - - - tcaccaa
- - - - - - - - - - - - - - - - - - -cattaac
- - - - - - - - - - - - - - - - - - - - - - - ggaaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatata