Sequence
atgc intronic sequence ATGC exonic sequence...tagaaaaatagaatatagaattttatctgcaattttttttagagatgctctgtggatgctccatactgacgtcatcccgacctgtttgtttttgtgcaagATTGATAGACGCCCTGGAGATGATGAAGCATGGTTTGAAGCGTCTTCTTGTTCCCAAGAGCGTGGTATGGAAAGGCATGAGCAAGCGATTCTCAATTCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g00310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G38710.1 (Glycine max), 3'ss of exon 1
tagaaaaatagaatatagaattttatctgcaattttttttagagatgctctg--tggatgctccatactgacgtcatcccgacctgtttgtttttgtgcaagATTGATAGACGCCCTGGAGATGATGAAGCATGGTTTGAAGCGTCTTCTTGTTCCCAAGAGCGTGGTATGGAAAGGCATGAGCAAGCGATTCTCAATTCTC
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agttttaatttataaccagtcttaatttgaacagtccttaaccaattttctaatttgacaaaa-acacccttaatatcttactttacttcctctcat-taagGTTGATAGATGCGCTGGACATGATGAAACAAGGTGTGAAGCGTCTGCTTGTTCCAAAGAGCGTAGCATGGAAGGGCATGAGCAAGCGATTCTCAGTTATC
upper sequence: Vv04s0023g00310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G47620.1 (Glycine max), 3'ss of exon 1
tagaaaaatagaatatagaattttatctgcaattttttttagagatgctctg--tggatgctccatactgacgtcatcccgacctgtttgtttttgtgcaagATTGATAGACGCCCTGGAGATGATGAAGCATGGTTTGAAGCGTCTTCTTGTTCCCAAGAGCGTGGTATGGAAAGGCATGAGCAAGCGATTCTCAATTCTC
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tttataatttgataactagtcttaatttgaacagtcctgaaccagttctctaatttgacaaac-acacccttaatatctaacttcacttcctctcat-caagGTTGATAGATGCGCTGGACATGATGAAACAAGGTGTGAAGCGTCTGCTTGTTCCAAAGAGCATAGCATGGAAGGGCATGAGCAAGCGATTCTCAGTTATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctctgtggatgctccatactgacgtcatcccgacctgtttgtttttgtgcaagATTGATAGACGCCCTGGAGATGATGAAGCATGGTTTGAAGCGTCTTCTTGTTCCCAAGAGCGTGGTATGGAAAGGCATGAGCAAGCGATTCTCAATTCTC
tactgac putative branch site (score: 1)
tttgttttt putative PPT
tttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagaaaaatagaatatagaattttatctgcaattttttttagagatgctctgtggatgctccatactgacgtcatcccgacctgtttgtttttgtgcaagATTGATAGACGCCCTGGAGATGATGAAGCATGGTTTGAAGCGTCTTCTTGTTCCCAAGAGCGTGGTATGGAAAGGCATGAGCAAGCGATTCTCAATTCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- -aaaaata
- - - - - - - - - - - - - ctgcaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tactgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cctgttt