Sequence
atgc intronic sequence ATGC exonic sequencegtattgctttgaatcaattaacttcatcattaattgggatttcgttctttggttatttactccttgttactaactgaaacttcatgaagaatgcagGTTGACTTATCTGCACGAGGGGCTTGAGCCTAAGGTCGTCCATCGTGATATTAAGTCGAGCAACATTTTGCTTGATAAGCAGTGGAATCCTAAAGTGTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os04g35080.1 (Oryza sativa), 3'ss of exon 3
gtattgctttgaatcaattaacttcatcattaattgggatttcgttctttggttatttactccttgttactaactgaaacttcatgaagaatgcagGTTGACTTATCTGCACGAGGGGCTTGAGCCTAAGGTCGTCCATCGTGATATTAAGTCGAGCAACATTTTGCTTGATAAGCAGTGGAATCCTAAAGTGTCT
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------------------------------gtatgcatctttcagttcattaccgtagactatagacatattggtaacattatttacattgtgcagCTTAATGTATCTGCATGAGGGACTTGAGCCAAAGGTGGTTCATCGTGATGTCAAGTCGAGCAACATCCTCCTTGACAAGACCTGGAATGCTAAGCTTTCT
upper sequence: Vv18s0001g10310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g34430.1 (Oryza sativa), 3'ss of exon 3
gtattgctttgaatcaattaacttcatcattaattgggatttcgttctttggttatttactccttgttactaactgaaacttcatgaagaatgcagGTTGACTTATCTGCACGAGGGGCTTGAGCCTAAGGTCGTCCATCGTGATATTAAGTCGAGCAACATTTTGCTTGATAAGCAGTGGAATCCTAAAGTGTCT
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------gtctgtgccttgtatct-cattgttgcggcccagtgaatcttgctgccatt--ctatctgtt--tacataaattctgctgttc--tgtagGTTAATGTATTTGCATGAGGGACTTGAGCCGAAGGTGGTTCACCGTGATGTCAAGTCGAGCAACATCCTCCTTGATAAGCACTGGAATGCTAAGCTCTCT
upper sequence: Vv18s0001g10310.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G050861_T01 (Zea mays), 3'ss of exon 3
gtattgctttgaat-caattaacttcatcattaattgggatttcgttctttggttatttactccttgttactaactgaaacttcatgaagaatgcagGTTGACTTATCTGCACGAGGGGCTTGAGCCTAAGGTCGTCCATCGTGATATTAAGTCGAGCAACATTTTGCTTGATAAGCAGTGGAATCCTAAAGTGTCT
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----------gtatgcactttgctgacttatta-ctgtagtcttgtttttttgctgtc-actatctg---cttacattattttacctaattgtgaagGTTAATGTATTTGCACGAGGGACTTGAGCCAAAGGTTGTTCACCGTGATGTCAAGTCGAGCAATATTCTTCTTGACAAGCATTGGAATGCAAAGCTTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcgttctttggttatttactccttgttactaactgaaacttcatgaagaatgcagGTTGACTTATCTGCACGAGGGGCTTGAGCCTAAGGTCGTCCATCGTGATATTAAGTCGAGCAACATTTTGCTTGATAAGCAGTGGAATCCTAAAGTGTCT
tactaac putative branch site (score: 0)
ttatttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgctttgaatcaattaacttcatcattaattgggatttcgttctttggttatttactccttgttactaactgaaacttcatgaagaatgcagGTTGACTTATCTGCACGAGGGGCTTGAGCCTAAGGTCGTCCATCGTGATATTAAGTCGAGCAACATTTTGCTTGATAAGCAGTGGAATCCTAAAGTGTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA