Sequence
atgc intronic sequence ATGC exonic sequencegtaggttttgaaagggaaatcatttgttcaattatttatttataactaccttgcagtttggaattttatgtctgaattactaacatctggtctgaaccttgaaaaacagTGGATTTCTAGCAGACAGAAAGAAACCTATCATCTTCTCAATGGCAAGGCTGGACATAGTGAAGAACATTACGGGGTTAACTGAGTGGTTCGGGAACAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os04g17650.1 (Oryza sativa), 3'ss of exon 11
--------------------gtaggtt--ttgaaagggaaatcatttgttcaattatttatttataactaccttg-cagtttgga-attttatgtctg------aattactaacatctggtctgaacctt--------gaaaaacagTGGATTTCTAGCAGACAGAAAGAAACCTATCATCTTCTCAATGGCAAGGCTGGACATAGTGAAGAACATTACGGGGTTAACTGAGTGGTTCGGGAACAAC
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gtaagctactacccggacggccaggctccttggaaacgtacctagctacaaattaacttctcttttactgttagatcagatcagacaacttaagttggttaattaagtgctaattgctgctcttcacctttttttaatttaaaccagAGGGTATCTGGCAGACAGGAACAAACCAATCATCTTCTCGATGGCAAGGCTTGATAAGGTAAAAAACATAACTGGGCTTGTGGAGTGGTATGGCCAGAAC
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os04g24430.1 (Oryza sativa), 3'ss of exon 11
--------------------gtaggtt--ttgaaagggaaatcatttgttcaattatttatttataactaccttg-cagtttgga-attttatgtctg------aattactaacatctggtctgaacctt--------gaaaaacagTGGATTTCTAGCAGACAGAAAGAAACCTATCATCTTCTCAATGGCAAGGCTGGACATAGTGAAGAACATTACGGGGTTAACTGAGTGGTTCGGGAACAAC
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gtaagctactacccggacggccaggctccttggaaacgtacctagctacaaattaacttctcttttactgttagatcagatcagacaacttaagttggctaattaagtgctaattgctgctcttcacctttttttaatttaaaccagAGGGTATCTGGCAGACAGGAACAAACCAATCATCTTCTCGATGGCAAGGCTTGATAAGGTAAAAAACATAACTGGGCTTGTGGAGTGGTATGGCCAGAAC
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G060659_T02 (Zea mays), 3'ss of exon 10
gtaggttttgaaagggaaatcatttgttcaattatttatttataactaccttgcagtttggaattttatgtctgaattactaacatctggtctgaaccttgaaaaacagTGGATTTCTAGCAGACAGAAAGAAACCTATCATCTTCTCAATGGCAAGGCTGGACATAGTGAAGAACATTACGGGGTTAACTGAGTGGTTCGGGAACAAC
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--------------gtaagtttcttttttttcctttcctttttca-tggcttacgcatagg-----taggacaagtttgctaac---cgctttgatgccatcaaaccagAGGGTATCTGGCGGACAGAAACAAGCCTATCATCTTCTCGATGGCAAGGCTGGACAAGGTGAAGAATATCACCGGGCTAGTGGAGTGGTACGGCCAGAAC
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA14G39070.1 (Glycine max), 3'ss of exon 11
gtaggttttgaaagggaaatcatttgttcaattatttatttataactacct---tgcagtttggaattttatgtctgaattactaacatctggtctgaaccttgaaaaacagTGGATTTCTAGCAGACAGAAAGAAACCTATCATCTTCTCAATGGCAAGGCTGGACATAGTGAAGAACATTACGGGGTTAACTGAGTGGTTCGGGAACAAC
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gtaagtgactttgttgcactcttgcatggtaacattcagttatgatatcctacattctttctaaatcctaatgaatgaatgactttcacttctgaaattgttatgtaaacagTGGATATCTAGCTGATAGGAGGAAGCCAATCATCTTCTCAATGGCAAGGCTTGATGTTGTGAAGAACTTAACCGGGTTAGTTGAATGGTATGGCAAGAAC
upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 10
gtaggttttgaaagggaaatcat-ttgttcaattatttatttataactaccttgcagt-ttggaattttatgtctgaattactaacatctggtctgaaccttga--aaaacagTGGATTTCTAGCAGACAGAAAGAAACCTATCATCTTCTCAATGGCAAGGCTGGACATAGTGAAGAACATTACGGGGTTAACTGAGTGGTTCGGGAACAAC
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--------------gtaagtgaccttgttgcactgttgcatagtaacatttatgaattaccacattcttccaattgaatgactttcactt--ttcgaattgttatggaaacagTGGATATCTAGCTGATAGGAGGAAGCCAATCATCTTCTCAATGGCAAGGCTTGATGTTGTGAAGAACTTGAGCGGGTTAGTTGAATGGTATGGCAAGAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtttggaattttatgtctgaattactaacatctggtctgaaccttgaaaaacagTGGATTTCTAGCAGACAGAAAGAAACCTATCATCTTCTCAATGGCAAGGCTGGACATAGTGAAGAACATTACGGGGTTAACTGAGTGGTTCGGGAACAAC
tactaac putative branch site (score: 0)
aattttatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggttttgaaagggaaatcatttgttcaattatttatttataactaccttgcagtttggaattttatgtctgaattactaacatctggtctgaaccttgaaaaacagTGGATTTCTAGCAGACAGAAAGAAACCTATCATCTTCTCAATGGCAAGGCTGGACATAGTGAAGAACATTACGGGGTTAACTGAGTGGTTCGGGAACAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC