Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgtatggttgtggcttatttcttgtgcatttacatgcaaaaatttttcctacctcatcttacttcatgtatttcgtagcatcaagagcagattttttattctgcagGCTTGATCTGTATTTACCCAAAAACAGTGATGGGCCAAAGCCAGTTGTTGCATTTGTAACTGGTGGAGCCTGGATTATTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g02530.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os05g50170.2 (Oryza sativa), 3'ss of exon 3
gtatgtgtatggttgtggcttatttcttgtgcatttacatgcaaaaatttttcctacctcatcttacttcatgtatttcgtagcatcaagagcagattttttattctgcagGCTTGATCTGTATTTACCCAAAAACAGTGATGGGCCAAAGCCAGTTGTTGCATTTGTAACTGGTGGAGCCTGGATTATTGG
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----------------------------gtatagaaactatctgctatataaacggaagaatctgattt--tggactttgc----tagagactcaatttcacactatacagGTTGGATCTTTACATACCAAGAGACCCCAAAAAACCCAGTCCAGTTGTTGCATTTGTTACTGGTGGTGCATGGATCATTGG
upper sequence: Vv01s0011g02530.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G406177_T01 (Zea mays), 3'ss of exon 3
gtatgtgtatggttgtggcttatttcttgtgcatttacatgcaaaaatttttcctacctcatcttacttcatgtatttcgtagcatcaagagcagattttttattctgcagGCTTGATCTGTATTTACCCAAAAACAGTGATGGGCCAAAGCCAGTTGTTGCATTTGTAACTGGTGGAGCCTGGATTATTGG
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--------------------------gtaagcaaagattaaataaagtcatgtctacatagcgt--cctggagcattt-gtaatagtagatctagagatattat---gcagGTTGGATTTGTACATACCCAAAGATAATAGCAAATCAAGTCCAGTTGTGGCATTCGTAACTGGTGGAGCTTGGATCATTGG
upper sequence: Vv01s0011g02530.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G18930.1 (Glycine max), 3'ss of exon 3
gtatg-tgtatggttgtggcttatttcttgtgcatttacatgcaaaaattt-ttcctacctcatcttacttcatgtatttcgtagcatcaagagcagattttttattctgcagGCTTGATCTGTATTTACCCAAAAACAGTGATGGGCCAAAGCCAGTTGTTGCATTTGTAACTGGTGGAGCCTGGATTATTGG
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gtatgctttatctatattgtcaatttgtcatttgtttctctacagttataaattcctac--------aattgttgtaattttta---ttaatagcttattttct--tttgcagGCTTGACTTGTATTTACCTAAAAATAGCAATGGTCCCAAACCAGTTGTTGCTTTTGTTACTGGCGGGGCCTGGATTATTGG
upper sequence: Vv01s0011g02530.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G26120.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgtgtatggttgtggcttatttcttgtgc-atttacatgcaaaaatttttcctac---ctcatc-ttacttcatgtatttcgtagcatcaagagcagattttttattctgcagGCTTGATCTGTATTTACCCAAAAACAGTGATGGGCCAAAGCCAGTTGTTGCATTTGTAACTGGTGGAGCCTGGATTATTGG
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gt-catgattgtttactgcttattattcgttctaatcatgtgtagattattgctctagagactagtagttggtttgtgttttgtttgttggtataagtggtttttggtttcttcagGCTTGACTTGTATCTACCTAAGAACTCTACTGGACCAAAACCAGTTGTGGCGTTTGTGACTGGTGGAGCCTGGATTATTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctcatcttacttcatgtatttcgtagcatcaagagcagattttttattctgcagGCTTGATCTGTATTTACCCAAAAACAGTGATGGGCCAAAGCCAGTTGTTGCATTTGTAACTGGTGGAGCCTGGATTATTGG
atcttac putative branch site (score: 3)
ttttttattct putative PPT
agattttttattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgtatggttgtggcttatttcttgtgcatttacatgcaaaaatttttcctacctcatcttacttcatgtatttcgtagcatcaagagcagattttttattctgcagGCTTGATCTGTATTTACCCAAAAACAGTGATGGGCCAAAGCCAGTTGTTGCATTTGTAACTGGTGGAGCCTGGATTATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG