Sequence
atgc intronic sequence ATGC exonic sequencegtggtgccataaactctatcgccccgtttcttcatgtcattcaatgatacaaatgcaaaataatcccttgttgtttgatatcttgaatattctagtaattggactcatgttgcatgttctatgacaaggttgttgcagGCTAACATGTTGGCAGCGGGGCTTGCAGCTTCTAATCTTCTTCTTTACGCCTTTGTATACACTCCATTGAAGCAAATTCATCCAGTTAACACCTGGGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g00430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g34390.1 (Oryza sativa), 3'ss of exon 3
gtggtgccataaactcta-tcgccccgtttcttcatgtcattcaatgatacaaatgcaaaataatcccttgttgtttgatatcttgaatattctagtaattggactcatgttgcatgttctatgacaaggttgttgcagGCTAACATGTTGGCAGCGGGGCTTGCAGCTTCTAATCTTCTTCTTTACGCCTTTGTATACACTCCATTGAAGCAAATTCATCCAGTTAACACCTGGGTTG
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--gttcgtacaagatcttctctatttatctgcacatgttatgtgttgttttaaatgtg---tttcgtttcagtagttggtatagt-actgttattacatctgaacac-cgtaaaatttt----ggcaaggtttctgcagGCTAATGGCTTGGCGGCTGGGCTCGCAGCTTCTAATCTTATTCTGTATGCATTTGTATACACACCATTGAAGCAAATACACCCTGTAAATACATGGGTTG
upper sequence: Vv15s0021g00430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G162776_T02 (Zea mays), 3'ss of exon 3
gtggtgccataaactctatcgccccgtttcttcatgtcattcaatg-atacaaatgcaaaataatcccttgttgtttgatatcttg---aatattctagtaattgg-actcatgttgcatgttcta-----tgacaaggttgttgcagGCTAACATGTTGGCAGCGGGGCTTGCAGCTTCTAATCTTCTTCTTTACGCCTTTGTATACACTCCATTGAAGCAAATTCATCCAGTTAACACCTGGGTTG
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-------------------gttcttgctttctctttgcattcaatatgtatttatattctaccttcttttgaaatttactaaactgtgaagtagatagaaagttgacactggaactaaacatgcaaaaaattggcaaggtttgtgcagGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAACCTTGTTCTGTACGCATTTGTTTATACGCCGTTGAAGCAAATACACCCTGTTAATACATGGGTTG
upper sequence: Vv15s0021g00430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G178859_T01 (Zea mays), 3'ss of exon 3
gtggtgccataaactctatcgccccgtttcttcatgtcattcaatgatacaaatgcaaaataatcccttgttgtttgata---tcttgaatattctagtaattgg-actcatgttgcatgttcta-----tgacaaggttgttgcagGCTAACATGTTGGCAGCGGGGCTTGCAGCTTCTAATCTTCTTCTTTACGCCTTTGTATACACTCCATTGAAGCAAATTCATCCAGTTAACACCTGGGTTG
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-------------------gttcttgctttctctttgcatctatagatgcatattctactt--tcttttgaaatttactaagctgtgaggtagtcagaaagctgacactggaactaaacatgcaaaaaattggcaaggtttgtgcagGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAATCTTGTTCTGTATGCATTTGTGTATACGCCGTTGAAGCAAATACACCCTGTTAATACATGGGTTG
upper sequence: Vv15s0021g00430.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G162776_T03 (Zea mays), 3'ss of exon 3
gtggtgccataaactctatcgccccgtttcttcatgtcattcaatg-atacaaatgcaaaataatcccttgttgtttgatatcttg---aatattctagtaattgg-actcatgttgcatgttcta-----tgacaaggttgttgcagGCTAACATGTTGGCAGCGGGGCTTGCAGCTTCTAATCTTCTTCTTTACGCCTTTGTATACACTCCATTGAAGCAAATTCATCCAGTTAACACCTGGGTTG
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-------------------gttcttgctttctctttgcattcaatatgtatttatattctaccttcttttgaaatttactaaactgtgaagtagatagaaagttgacactggaactaaacatgcaaaaaattggcaagGTTTGTGCAGGCTAATGGCTTGGCAGCTGGGCTTGCAGCTTCTAACCTTGTTCTGTACGCATTTGTTTATACGCCGTTGAAGCAAATACACCCTGTTAAT---------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaatattctagtaattggactcatgttgcatgttctatgacaaggttgttgcagGCTAACATGTTGGCAGCGGGGCTTGCAGCTTCTAATCTTCTTCTTTACGCCTTTGTATACACTCCATTGAAGCAAATTCATCCAGTTAACACCTGGGTTG
tagtaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtgccataaactctatcgccccgtttcttcatgtcattcaatgatacaaatgcaaaataatcccttgttgtttgatatcttgaatattctagtaattggactcatgttgcatgttctatgacaaggttgttgcagGCTAACATGTTGGCAGCGGGGCTTGCAGCTTCTAATCTTCTTCTTTACGCCTTTGTATACACTCCATTGAAGCAAATTCATCCAGTTAACACCTGGGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA