Sequence
atgc intronic sequence ATGC exonic sequence...cttcttcttagagttctcacctttcagaacttttttcttttcacttttaaactgctgtaacaaaattctgaatggaaattattttttttgtctatttcagGGTATTGGTCATCAGAAAGGCTCTGAACAGTTTGACAAAGTTCTTAGGGGTCTTCTACGAAGGATATTGGATACCAACAAGCGGGTGCAAGAGGCTGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G376731_T01 (Zea mays), 3'ss of exon 14
cttcttcttagagttctcacctttcagaacttttttctttt-cactttt-aaactgctgtaacaaaat--tctgaatggaaattattttttttgtctatttcagGGTATTGGTCATCAGAAAGGCTCTGAACAGTTTGACAAAGTTCTTAGGGGTCTTCTACGAAGGATATTGGATACCAACAAGCGGGTGCAAGAGGCTGCTT
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----acatttatgcaccatcttttgaaaaagtatcacttctgcattttttaaatttatacattattatggttcttatggaattgtattcttgtctccaatgcagAGCCTTGATCATCCAAATGGACGTGAACAATTTGATAAGATTCTCATGGGATTGCTAAGAAGGATATTGGATACTAACAAAAGAGTGCAAGAGGCTGCTT
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G312026_T01 (Zea mays), 3'ss of exon 14
cttcttcttagagttctcacctttcagaacttttttcttttcacttttaaactgctgtaacaaaat--tctgaatggaaattattttttttgtctatttcagGGTATTGGTCATCAGAAAGGCTCTGAACAGTTTGACAAAGTTCTTAGGGGTCTTCTACGAAGGATATTGGATACCAACAAGCGGGTGCAAGAGGCTGCTT
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--gacatttatgcatcatctttaggaaaagtgttacttctgcatttttaaatctgtacattattatggttcttatggaactgtattcttgtctccaatgcagAGCCTTGATCATCCAAATGGACGCGGACAATTTGATAAGATTCTTATGGGAGTGCTCAGAAGGATATTGGATACTAACAAAAGAGTGCAAGAGGCTGCTT
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 14
cttcttcttagagttctcacctttcagaacttttttcttttcacttt--taaactgctgtaacaaaattctgaatg-gaaattattttttttg----tctatttcagGGTATTGGTCATCAGAAAGGCTCTGAACAGTTTGACAAAGTTCTTAGGGGTCTTCTACGAAGGATATTGGATACCAACAAGCGGGTGCAAGAGGCTGCTT
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-----cctatatgatctgatatct--aattttagtaattcatagttaaataaagagcacttacataattgtcatttcaaggttgtcttctttgaatttgtgtcttagGGTATTGGGCATCCGAAAGGCTATGAACAGTTTGATAATGTTCTTATGGGTCTTCTACGAAGAATTTTGGATGATAATAAGCGGGTTCAAGAGGCTGCTT
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA20G24040.1 (Glycine max), 3'ss of exon 14
cttcttcttagagttctcacctttcagaacttttttcttttcacttttaaactgctgtaacaaaatt-ctgaatggaaattattttt---tttgtctatttcagGGTATTGGTCATCAGAAAGGCTCTGAACAGTTTGACAAAGTTCTTAGGGGTCTTCTACGAAGGATATTGGATACCAACAAGCGGGTGCAAGAGGCTGCTT
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---atggactgatatctaag-tttagtaattcatagttaaataaagagaacttgctgtataattgtcatttcaaggctgtcttctttgaatttgtgtgtcttagGGTATTGGGCATCCTAAAGGCTATGAACAATTTGATAATGTTCTTATGGGTCTTCTACGAAGAATTTTGGATGATAATAAGCGGGTCCAAGAGGCTGCTT
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT2G16950.1 (Arabidopsis thaliana), 3'ss of exon 14
cttcttcttagagttctcacctttcagaacttttttcttttcacttttaaactgctgtaacaaaattctgaatggaaattattttttttgtctatttcagGGTATTGGTCATCAGAAAGGCTCTGAACAGTTTGACAAAGTTCTTAGGGGTCTTCTACGAAGGATATTGGATACCAACAAGCGGGTGCAAGAGGCTGCTT
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-------------gtatgactt----gaacaggatatatcacacttt--aactgcttcaaacgatttttagatg--attcactgtttttattt--tctagGAAAGTGGCAATCCGAAGGGTTATGAACAATTTGAGAAAGTTCTTATGGGTCTTCTCCGCAGACTCTTGGATACGAACAAGCGGGTTCAGGAGGCTGCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaaactgctgtaacaaaattctgaatggaaattattttttttgtctatttcagGGTATTGGTCATCAGAAAGGCTCTGAACAGTTTGACAAAGTTCTTAGGGGTCTTCTACGAAGGATATTGGATACCAACAAGCGGGTGCAAGAGGCTGCTT
ctgtaac putative branch site (score: 3)
ttttttttgtctattt putative PPT
aaaattctgaatggaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcttcttagagttctcacctttcagaacttttttcttttcacttttaaactgctgtaacaaaattctgaatggaaattattttttttgtctatttcagGGTATTGGTCATCAGAAAGGCTCTGAACAGTTTGACAAAGTTCTTAGGGGTCTTCTACGAAGGATATTGGATACCAACAAGCGGGTGCAAGAGGCTGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
cttcttc
- - - - - - - -ctcacct
- - - - - - - - - - - - - - - - - - - - - - - - - actgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaatgg