Sequence
atgc intronic sequence ATGC exonic sequencegtgctcatctgcattgatgtttgaaaatctatttacattgcatgtacttctgattgttacactcactggtcccgttttcagGCCAACAACAAGAAAGTTTTTGGAAACCACTCATTCCGCCCCAATCAAAGGGAGGTCATCAATGCTACAATGAGTGGATATGATGTTTTTGTTCTAATGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g00400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g35420.1 (Oryza sativa), 3'ss of exon 7
gtgctcatctgcattgatgtttgaaaatctatttacattgcatgtacttctgattgttacactcactggtcccgttttcagGCCAACAACAAGAAAGTTTTTGGAAACCACTCATTCCGCCCCAATCAAAGGGAGGTCATCAATGCTACAATGAGTGGATATGATGTTTTTGTTCTAATGC
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gttattttcttcaaaatcaactgtaattat-ttcaaacatcatttgtttgtgagaatgacttgtcttgctgcc-tcatcagGCCAACAACAAAAGAGTATTTGGAAACCGTTCTTTTCGCCCAAATCAACGAGAAATAATCAACGCCACAATGAGTGGGAATGATGTTTTTGTTTTGATGC
upper sequence: Vv12s0035g00400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G319573_T03 (Zea mays), 3'ss of exon 6
gtgctcatctgcattgatgtttgaaaatctatttacattg-catgtacttctgattgttacactcactggtcccgttttcagGCCAACAACAAGAAAGTTTTTGGAAACCACTCATTCCGCCCCAATCAAAGGGAGGTCATCAATGCTACAATGAGTGGATATGATGTTTTTGTTCTAATGC
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gttattttcttcagcatcattttttaat-tatttacgccatcactgatttttgaatactattaacctttagtgcatatccagGCCAAGAACAGAAATAAGTTTGGAAACCATTCTTTCCGCCCCAACCAACGAGAAATAATCAATGCCACAATGAGTGGGCATGATGTTTTTGTTTTGATGC
upper sequence: Vv12s0035g00400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G20070.1 (Glycine max), 3'ss of exon 10
gtgctcatctgcattgatgtttgaaaatctatttacattgcatgtacttctgattgttacactcactggtcccgttttcagGCCAACAACAAGAAAGTTTTTGGAAACCACTCATTCCGCCCCAATCAAAGGGAGGTCATCAATGCTACAATGAGTGGATATGATGTTTTTGTTCTAATGC
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gtatttaactgaattattgtcag--------tttccagtgaatgtaactc--atctttataacttttt-ccttacttttagGTTAATAATAAAAAAGTATTTGGAAATCACTCATTTCGCCCCAATCAAAGAGAGATCATTAATGCCTCAATGAGTGGATGTGATGTTTTTGTTCTGATGC
upper sequence: Vv12s0035g00400.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G60930.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgctcatctgcattgatgtttgaaaatctatttacattgcatgtacttctgattgttacactcactggtcccgttttcagGCCAACAACAAGAAAGTTTTTGGAAACCACTCATTCCGCCCCAATCAAAGGGAGGTCATCAATGCTACAATGAGTGGATATGATGTTTTTGTTCTAATGC
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gtgattggttat-ctgtcgtccgctgttccattat--ttacatccctcctgtgtactcatgtgctccattgcaatgattagGTCTATAACAAATTAGTGTTTGGAAACCACTCATTTCGACCCAACCAAAGAGAGATCATTAATGCTACAATGAGTGGTTGTGATGTTTTTGTTTTGATGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctatttacattgcatgtacttctgattgttacactcactggtcccgttttcagGCCAACAACAAGAAAGTTTTTGGAAACCACTCATTCCGCCCCAATCAAAGGGAGGTCATCAATGCTACAATGAGTGGATATGATGTTTTTGTTCTAATGC
cactcac putative branch site (score: 2)
tcccgttttc putative PPT
tttacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctcatctgcattgatgtttgaaaatctatttacattgcatgtacttctgattgttacactcactggtcccgttttcagGCCAACAACAAGAAAGTTTTTGGAAACCACTCATTCCGCCCCAATCAAAGGGAGGTCATCAATGCTACAATGAGTGGATATGATGTTTTTGTTCTAATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA