Sequence
atgc intronic sequence ATGC exonic sequence...ttcttactgagtattatcccttttcctccttcatttgcatcttattgcttttttttcttgatcttcttgaactgaaactagttgaccatgtacataacagGTATGAATTGTTTGTTGGTCAGCCTCCCTTTTATACAAATTCAGTATATGCACTCATCCGGCACATCATTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g02400.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os12g24550.1 (Oryza sativa), 3'ss of exon 8
ttcttactgagtattatcccttttcctccttcatttgcatcttattgcttt-tttttcttgatcttcttgaa--ctgaaactagttgaccatgtacat--aacagGTATGAATTGTTTGTTGGTCAGCCTCCCTTTTATACAAATTCAGTATATGCACTCATCCGGCACATCATTAAG
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-----ggcaaatgcattgctctgctcttttttatatataaaacaatattccaccacttccaacttgcctgacacctcaagctaacttttctggttggttggtcagGTATGAACTATTTGTTGGACAGCCCCCTTTTTATACAAATTCAGTCTATGCACTTATACGGCACATTGTCAAG
upper sequence: Vv16s0039g02400.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G062524_T02 (Zea mays), 3'ss of exon 7
ttcttactgagtattatcccttttcctccttcatttgcatcttattgcttttttttcttgatc-ttcttgaactgaaactagttgaccatgtacataac-agGTATGAATTGTTTGTTGGTCAGCCTCCCTTTTATACAAATTCAGTATATGCACTCATCCGGCACATCATTAAG
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-tactgctggccttcagcaaatggttcaagttgatgccatct-actctgctttgtgtttgataatttatctatcaggctaaatttattgtttggttgaccagATATGAATTGTTTGTTGGACAGCCCCCCTTTTATACAAATTCGGTCTATGCACTTATCCGGCACATTGTCAAG
upper sequence: Vv16s0039g02400.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G22860.1 (Glycine max), 3'ss of exon 7
ttcttactgagtattatcccttttc-ctccttcatttgcatcttattgcttttttttcttgatcttcttgaactgaaactagttgaccatgtacataacagGTATGAATTGTTTGTTGGTCAGCCTCCCTTTTATACAAATTCAGTATATGCACTCATCCGGCACATCATTAAG
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atggtagtgtgttttgttgaacaacactttctaaccctcattttgct-ttgctagtcaggagtcaccttaagttaaagcctatttttcatgcttataacagGTATGAGTTATTTGTTGGCCAACCACCATTTTACACAAATTCTGTATATGCTCTCATCAGACACATTGTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcttttttttcttgatcttcttgaactgaaactagttgaccatgtacataacagGTATGAATTGTTTGTTGGTCAGCCTCCCTTTTATACAAATTCAGTATATGCACTCATCCGGCACATCATTAAG
agttgac putative branch site (score: 4)
ttttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttactgagtattatcccttttcctccttcatttgcatcttattgcttttttttcttgatcttcttgaactgaaactagttgaccatgtacataacagGTATGAATTGTTTGTTGGTCAGCCTCCCTTTTATACAAATTCAGTATATGCACTCATCCGGCACATCATTAAG
- cttactg
- - - - - - - - tcccttt
- - - - - - - - - - - -tcctcct
- - - - - - - - - - - - - - - -catttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaccatg