Sequence
atgc intronic sequence ATGC exonic sequence...ttccttttgtggttatctctaactattttagtaataaataacaaatagccttgtctcttacttttctcacttttttcccattttgtctgcactaatgaagGAATGGCCTGAAGAGACCTATCCTCCCTGGGCACATGGTCCTGGTTATGTTGTGTCACATGACATAGCAAAGCAAGTCTACAAGAGATACAAAAAAGGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0026g02530.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g12390.2 (Oryza sativa), 3'ss of exon 7
-ttccttttgtggttatctctaactattttagtaataaataacaaatagccttgtctcttacttttctcacttttttcccattttgtctgcactaatgaagGAATGGCCTGAAGAGACCTATCCTCCCTGGGCACATGGTCCTGGTTATGTTGTGTCACATGACATAGCAAAGCAAGTCTACAAGAGATACAAAAAAGGTC
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actgatttgttagtaattgggcacattcaacaggcttagcgataaatc-ctttaccatttttattttgcgatgaaataactctactactctacttatatagGAATGGCCTGAGGAGAGTTATCCTCCATGGGCACATGGTCCGGGATACATTGTATCACAAGACATAGCAAAAGAAGTTTACAGGAAACACAAGAGAGGAG
upper sequence: Vv01s0026g02530.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G164072_T01 (Zea mays), 3'ss of exon 5
ttccttttgtggttatctc-taactattttagtaataaataacaaatagccttgtctcttact----tttctcacttttttcccattttgtctgcactaatgaagGAATGGCCTGAAGAGACCTATCCTCCCTGGGCACATGGTCCTGGTTATGTTGTGTCACATGACATAGCAAAGCAAGTCTACAAGAGATACAAAAAAGGTC
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-----ttaaagcatattttgctgccttgttttcaataatttagttccggttttgtcattttgtgcggtggatcaagtgtggtaactaatgttttgcttgagttagGAATGGCCTGAGGAGAATTATCCTCCATGGGCGCATGGTCCAGGATATATTGTTTCACAGGACATAGCTAAAGAAGTTTACAGGAAACACAAGAATGGGG
upper sequence: Vv01s0026g02530.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G042607_T01 (Zea mays), 3'ss of exon 5
ttccttttgtggttatctctaactattttagtaataaataacaaatagcct-tgtctcttacttttct----cacttttttcccattttgtctgcactaatgaagGAATGGCCTGAAGAGACCTATCCTCCCTGGGCACATGGTCCTGGTTATGTTGTGTCACATGACATAGCAAAGCAAGTCTACAAGAGATACAAAAAAGGTC
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----ttaagcatatgttgctgccttatttt-caataatttagttctggtttctgtcatttggtatggtggatcaagtgtaataactgctgttttacttgagttagGAATGGCCTGAGGAGAGTTATCCTCCCTGGGCGCATGGACCAGGATATATTGTTTCAAAGGACATAGCTAAAGAAGTTTACAGGAAACACAAGAGTGGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagccttgtctcttacttttctcacttttttcccattttgtctgcactaatgaagGAATGGCCTGAAGAGACCTATCCTCCCTGGGCACATGGTCCTGGTTATGTTGTGTCACATGACATAGCAAAGCAAGTCTACAAGAGATACAAAAAAGGTC
cactaat putative branch site (score: 2)
ttactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttccttttgtggttatctctaactattttagtaataaataacaaatagccttgtctcttacttttctcacttttttcccattttgtctgcactaatgaagGAATGGCCTGAAGAGACCTATCCTCCCTGGGCACATGGTCCTGGTTATGTTGTGTCACATGACATAGCAAAGCAAGTCTACAAGAGATACAAAAAAGGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- ccttttg
- - - - - - - - ctctaac
- - - - - - - - - - - - - - - - aataaat
- - - - - - - - - - - - - - - - - - - - acaaata