Sequence
atgc intronic sequence ATGC exonic sequence...ttttcagaatagctggttgttttgaattcgtgttgatctgcttatgctgtaaattgtgaattttcttttgctaacaagggatgacattttggtgttttagTCGTGCTGTTGGATACCGTTTTGGATCTCATCTTGGAGATACTGTTCCTGTGCTAATTAATTACTGCACAAGTGCATCAGAGAATGATGAAGAGCTTCGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 6
ttttcagaatagctggttgttttgaattcgtgttgatctgcttatgct-gtaaattgtgaattttcttttgctaacaagggatgacattttggtgttttagTCGTGCTGTTGGATACCGTTTTGGATCTCATCTTGGAGATACTGTTCCTGTGCTAATTAATTACTGCACAAGTGCATCAGAGAATGATGAAGAGCTTCGA
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ccagttgaaatccagatatttactattttttggcgatttagtggttcttatctggtgtgcggcaatccaagttttgattcaatattattttcat-ttacagTCGCTCGGTTGGATACCGTTTTGGGCCACACCTTGCTGAAGCTGTTCCTTTGCTCATAAACTATTGTACAAGTGCATCGGAAAATGATGAAGAGCTCCGT
upper sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 6
ttttcagaatagctggttgttttgaattcgtgttgatct-----gcttatgctgtaaattgtga-attttcttttgctaacaagggatgacattttggtgttttagTCGTGCTGTTGGATACCGTTTTGGATCTCATCTTGGAGATACTGTTCCTGTGCTAATTAATTACTGCACAAGTGCATCAGAGAATGATGAAGAGCTTCGA
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----taaatgttttatttgcttctaccgtgggttgagattacaaacttatagaataaagtctgataccgaggcttgctataacactatg-cgttttggcatgc-agTCGTTCTGTTGGGTACCGTTTTGGGCCACACCTTGCTGAAACTGTTCCTTTGCTTATAAGCTATTGTACAAGTGCATCTGAAAATGATGAAGAGCTCCGT
upper sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G00570.1 (Glycine max), 3'ss of exon 5
ttttcagaatagctggttgttttgaattcgtgt----tgatctgcttatgctgtaaattgtgaattttctt-ttgctaacaagggatgacattttggtgttttagTCGTGCTGTTGGATACCGTTTTGGATCTCATCTTGGAGATACTGTTCCTGTGCTAATTAATTACTGCACAAGTGCATCAGAGAATGATGAAGAGCTTCGA
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--gttagaattctcatcaatataaatcttatgccttgttttcttttcatattgaaaaggaatcattttcttgttatcaacaattttgtataaattggtgtttcagTCGAGCTGTTGGCTACCGATTTGGGCCCCATCTTGGAGACACTGTTCCAGTGCTAATTAATTATTGTACTAATGCCTCAGAAAATGATGAAGAGCTTCGT
upper sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G40230.1 (Glycine max), 3'ss of exon 6
ttttcagaatagctggttgttttgaa---ttcgtgttga--tctgcttatgctgtaaattgtgaattttctt-ttgctaacaagggatgacattttggtgttttagTCGTGCTGTTGGATACCGTTTTGGATCTCATCTTGGAGATACTGTTCCTGTGCTAATTAATTACTGCACAAGTGCATCAGAGAATGATGAAGAGCTTCGA
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--gttagaatt-ctcatcaatctaaaccttttgccttgttttctttttatattgagaaggaatcattttcttgttatcaacaattttgtactaattggtgtttcagTCGAGCTGTTGGCTACCGATTTGGGCCCCATCTTGGAGACACTGTTCCAGTGCTAATTAATTATTGTACTAATGCCTCAGAAAATGATGAAGAGCTTCGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctgtaaattgtgaattttcttttgctaacaagggatgacattttggtgttttagTCGTGCTGTTGGATACCGTTTTGGATCTCATCTTGGAGATACTGTTCCTGTGCTAATTAATTACTGCACAAGTGCATCAGAGAATGATGAAGAGCTTCGA
tgctaac putative branch site (score: 1)
aaattgtgaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttcagaatagctggttgttttgaattcgtgttgatctgcttatgctgtaaattgtgaattttcttttgctaacaagggatgacattttggtgttttagTCGTGCTGTTGGATACCGTTTTGGATCTCATCTTGGAGATACTGTTCCTGTGCTAATTAATTACTGCACAAGTGCATCAGAGAATGATGAAGAGCTTCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - -tggttgt
- - - - - - - - - - - - - - - - - - - - cttatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaagg