Sequence
atgc intronic sequence ATGC exonic sequence...gaaaaataaactattatttgttatttttggagacttactgtattagtcactctggacattgacgtgtatgcatttcttggcatgttttttcattattcagAATGTGTAGAGCTTTAATGCCTGGAGATGAAGAAAGCATGAGTGATGAAGCTATTTGGGAGACGCTTCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G704032_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g49900.1 (Oryza sativa), 3'ss of exon 4
gaaaaataaactattatttgttatttttggagacttactgtattagtcactctggacattgacgtgtatgcattt-cttggcatgttttttcattattcagAATGTGTAGAGCTTTAATGCCTGGAGATGAAGAAAGCATGAGTGATGAAGCTATTTGGGAGACGCTTCCT
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aaaatatctagagatattagttgttaatacaatagtagcgctaaagttaatttggatgttaacctttattttttttccttgcat-tggtttgactattcagAATGTGTAGAGCTTTAATGCCAGGAGATGAAGAAAGTATGAGCGATGAAGCTATTTGGGAGACACTTCCT
upper sequence: GRMZM2G704032_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA05G07960.1 (Glycine max), 3'ss of exon 4
gaaaaataaactattatttgttatttttggagacttactgtattagtc-actctggacattgacgtgtatgcatttcttggca---tgttttttcattattcagAATGTGTAGAGCTTTAATGCCTGGAGATGAAGAAAGCATGAGTGATGAAGCTATTTGGGAGACGCTTCCT
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gatgaatgcgaacctcttcagcataattcatg----agtgtgggagcccatattcaccaattatttatcttccctttataaccaactatatttttattttgcagGATGTGTAAGGCTCTAATGCCAGGGGATGGAGAAAACATGAGTGATGAGGCTATATGGGAAACTCTTCCT
upper sequence: GRMZM2G704032_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT1G68820.1 (Arabidopsis thaliana), 3'ss of exon 4
gaaaaataaactattatttgttatttttggagacttactgtattagtcactctggacattgacgtgtatgcatttcttggcatgttttttcattattcagAATGTGTAGAGCTTTAATGCCTGGAGATGAAGAAAGCATGAGTGATGAAGCTATTTGGGAGACGCTTCCT
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gtattccattcaaagcttttttgattttgttcacccttcttactact--cttagagtacggaacaattaaatcttttttgcaactattcc-----tgcagAATGTGCAGGACGCTCATGCCTGGAGATGAAGAAACTATGAGTGATGAAGCCATATGGGAAACACTTCCT
upper sequence: GRMZM2G704032_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv17s0000g04160.t01 (Vitis vinifera), 3'ss of exon 4
gaaaaataaactattatttg---ttatttttggagacttactgtattagtcactctggacattgacgtgtatgcatttcttggcatgttttttcattattcagAATGTGTAGAGCTTTAATGCCTGGAGATGAAGAAAGCATGAGTGATGAAGCTATTTGGGAGACGCTTCCT
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---ggctttgctactttttaactttatgctcagtgaactattcctcagtctattctagttgattatgcttcaacctataaattgatatccatttgctctacagAATGTGTAAGGCGCTAATGCCAGGAGATGAAGAAAGCATGAGTGATGAAGCAATATGGGAGACACTTCCT
upper sequence: GRMZM2G704032_T01 (Zea mays), 3'ss of exon 4
lower sequence: Vv01s0011g02950.t01 (Vitis vinifera), 3'ss of exon 4
gaaaaataaactattatttgttatttttggagacttactgtattag--tcactctggacattgacgtgtatgcatttcttggcatgttttttcattattc-agAATGTGTAGAGCTTTAATGCCTGGAGATGAAGAAAGCATGAGTGATGAAGCTATTTGGGAGACGCTTCCT
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--tatattactttgcagttgtattacttagtgtcaagtaatagtaaaataattctgtcaaattgtgcatcagc-ctgattaacaaatgcatgttttattttagGATGTGTAAGGCTTTAATGCCTGGAGATGATGAAAGCATTAGTGATGAAGCAATATGGGAGACCCTTCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcactctggacattgacgtgtatgcatttcttggcatgttttttcattattcagAATGTGTAGAGCTTTAATGCCTGGAGATGAAGAAAGCATGAGTGATGAAGCTATTTGGGAGACGCTTCCT
cattgac putative branch site (score: 3)
ttttttcattattc putative PPT
atgttttttcattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaaaataaactattatttgttatttttggagacttactgtattagtcactctggacattgacgtgtatgcatttcttggcatgttttttcattattcagAATGTGTAGAGCTTTAATGCCTGGAGATGAAGAAAGCATGAGTGATGAAGCTATTTGGGAGACGCTTCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
-aaaaata
- - - - - - - - - - - - - - - - -cttactg
- - - - - - - - - - - - - - - - - - - - - - - - - -ctggaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgttt