Sequence
atgc intronic sequence ATGC exonic sequence...ataaaaacaccatagttgtgttgtgttctttagatgcttttgtttatttcatttgactaaatgatgccttttcttccttttaatgtatatgtacaattagGAGGAACAAAAGGAGTGGGATCAATGTCTGTTAATGCTTGGCGATGCTAAAGTGGATGAACATGGAAATGTTAACGACACAAAGGATTGCAATGTCATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G147603_T02 (Zea mays), 3'ss of exon 1
ataaaaacaccatagttgtgttgtgttctttagatgcttttgttta---tttcatttgactaaatgatgccttttcttccttttaatgtatatgtacaattagGAGGAACAAAAGGAGTGGGATCAATGTCTGTTAATGCTTGGCGATGCTAAAGTGGATGAACATGGAAATGTTAACGACACAAAGGATTGCAATGTCATGT
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--cagttttccgtttctaggttagtctagattgttaacttagtgagagctttgagcttcttctacaatttcaacttcacaattttgtttctttgttta-ttagGAGGAGTTGAAAGAGTGGCATCAGTGTTTGTTGATGCTTGGGGATGCAAAAGTGGATGAGCATGGAAATGTCCTTGATCATGATGATGACAGTGATATTT
upper sequence: Vv19s0014g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G166684_T02 (Zea mays), 3'ss of exon 1
--ataaaaacaccatagttgtgttgtgttctttagatgcttttgtttatttcatttgactaa-atgatgccttttcttccttttaatgtatatgtacaattagGAGGAACAAAAGGAGTGGGATCAATGTCTGTTAATGCTTGGCGATGCTAAAGTGGATGAACATGGAAATGTTAACGACACAAAGGATTGCAATGTCATGT
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cagttttccgtttctaggaaagtctagattgttaact--tagcgtgagcttcgggcttctgctacaacttcaacttcacagttttgtttctttgttta-ttagGAGGAGTTGAAAGAGTGGCATCAGTGTTTGTTGATGCTTGGGGATGCAAAAGTGGATGAGCATGGAAATGTCCTTGATCATGATGTTGGCAGTGATATAT
upper sequence: Vv19s0014g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G32850.1 (Glycine max), 3'ss of exon 1
ataaaaacaccatagttgtgttgtgttctttagatgcttttgtttatttcatttgactaaatgatgccttttcttccttttaatgtatatgtacaatt--agGAGGAACAAAAGGAGTGGGATCAATGTCTGTTAATGCTTGGCGATGCTAAAGTGGATGAACATGGAAATGTTAACGACACAAAGGATTGCAATGTCATGT
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ttaaaatcatggaagagagagtaatattttaggatgtaactggg-gtttattcttatttattgttattggtgtttattaatgaggcgtg-gtgttattgaagGAGGAACTGAAGGAGTGGGATCAGTGCCTGTCGATGCTGGGTGAGGCTAAAGTGGACGACGATGGAAATGTTTATGATATGAAGGACTCTAATGTCATGT
upper sequence: Vv19s0014g01170.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G25700.1 (Glycine max), 3'ss of exon 1
ataaaaacaccatagttgtgttgtgttctttagatgcttttgtttatttcatttgactaaatgatgccttttcttccttttaatgtatatgtacaatt--agGAGGAACAAAAGGAGTGGGATCAATGTCTGTTAATGCTTGGCGATGCTAAAGTGGATGAACATGGAAATGTTAACGACACAAAGGATTGCAATGTCATGT
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ttaaaatcatggaagagagagta-atactttaggatttaactggggtttattcttatttattgttattggtgtttattaatgaggcgtg-gtgttattgaagGAGGAACTGAAGGAGTGGGATCAGTGCCTGTCGATGCTGGGTGAGGCTAAAGTGGACGACGATGGAAATGTTTATGATATGAAGGACTCTAATGTCATGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttcatttgactaaatgatgccttttcttccttttaatgtatatgtacaattagGAGGAACAAAAGGAGTGGGATCAATGTCTGTTAATGCTTGGCGATGCTAAAGTGGATGAACATGGAAATGTTAACGACACAAAGGATTGCAATGTCATGT
ttttaatgtatatgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataaaaacaccatagttgtgttgtgttctttagatgcttttgtttatttcatttgactaaatgatgccttttcttccttttaatgtatatgtacaattagGAGGAACAAAAGGAGTGGGATCAATGTCTGTTAATGCTTGGCGATGCTAAAGTGGATGAACATGGAAATGTTAACGACACAAAGGATTGCAATGTCATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
ataaaaa
- - - -caccata
- - - - - - - - - - -tgtgttc