Sequence
atgc intronic sequence ATGC exonic sequencegtagagatctttgatactacacgcattggctgcttccttcccttttttttttttttttttggattttggaatttccttttcctgggtattgggtattgggaattctggagtgttgatgctacggtgcggttcttgggatttttgtttgcagCGATTTCTAGCCGGTCGATGATGAAGTTTGAGAGTGGGTACACAGTTGAGACCGTGTTTGATGGAAGCAAGCTTGGAATTGAACCCTACTCAATTGAGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G39910.1 (Glycine max), 3'ss of exon 2
gtagagatctttgatactacacgcattggctgcttccttcccttttttttttttttttttggattttggaatttccttttcctgggtattgggtattgggaattctggagtgttgatgctacggtgcggttcttgggatttttgtttgcagCGATTTCTAGCCGGTCGATGATGAAGTTTGAGAGTGGGTACACAGTTGAGACCGTGTTTGATGGAAGCAAGCTTGGAATTGAACCCTACTCAATTGAGGT
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----------------------------------------------gtgtggatctggtgcaagtttggtttttggcttt----ggttttggtagatggg--ttttgaaggtttgaaatgtgggtt---tttttggggtttttttttgcagCGGTTTCGAGCAGGTCGATGATGAAGTTCGAGAGTGGGTACAACGTGGAGACTGTGTTTGATGGAAGCAAGCTTGGGATCGAGCCTTATGCTGTGGAGGT
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G03880.1 (Glycine max), 3'ss of exon 2
gtagagatctttgatactacacgcattggctgcttccttcccttttttttttttttttttggattttggaatttccttttcctgggtattgggtattgggaattctggagtgttgatgctacggtgcggttct-tgggatttttgt-ttgcagCGATTTCTAGCCGGTCGATGATGAAGTTTGAGAGTGGGTACACAGTTGAGACCGTGTTTGATGGAAGCAAGCTTGGAATTGAACCCTACTCAATTGAGGT
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--------------------------------------------------------------------gtatgaaactatgcaatgtagattgcattcttttttct----tttttttgttagtttttggttatgtggaattgaaatgttgcagCGATTGGTGCGAAGTCGATGATGAAGTTCGAGAGTGGGTACACTGTGGAAACCGTGTTTGATGGAAGCAAGCTTGGAATTGAGCCTTATGCAGTTGAGGT
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G18550.1 (Glycine max), 3'ss of exon 1
gtagagatctttgatactacacgcattggctgcttccttcccttttttttttttttttttggattttggaatttccttttcctgggtattgggtattgggaattctggagtgttgatgctacggtgcggttcttgggatttttgtttgcagCGATTTCTAGCCGGTCGATGATGAAGTTTGAGAGTGGGTACACAGTTGAGACCGTGTTTGATGGAAGCAAGCTTGGAATTGAACCCTACTCAATTGAGGT
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---------------------------gtatggatctggtgcaagtttagttttcggctttggttttgtgtgtttctgtttttgtcttctgcgtggtggtgggttttgaggtttga------aatgtgggtttt------tttttttgcagCGGTTTCGAGCAGGTCGATGATGAAGTTCGAGAGTGGGTACAATGTGGAGACTGTGTTTGATGGAAGCAAGCTTGGGATCGAGCCTTATGCTGTGGAGGT
upper sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G03810.1 (Glycine max), 3'ss of exon 2
gtagagatctttgatactacacgcattggctgcttccttcccttttttttttttttttttggattttggaatttccttttcctgggtattgggtattgggaattctggagtgttgatgctacggtgcggttcttgggatttttgtttgcagCGATTTCTAGCCGGTCGATGATGAAGTTTGAGAGTGGGTACACAGTTGAGACCGTGTTTGATGGAAGCAAGCTTGGAATTGAACCCTACTCAATTGAGGT
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------------------------------------------------gtatgaaactttacaaagtaga-ttgcattttcttt----ttgtttcttttcaattttgaagtttttg-gttatgtggaa----ttgaaatgttt-----cagCGATTGGTGCGAAGTCGATGATGAAGTTCGAGAGTGGGTACACTGTGGAAACTGTGTTTGATGGAAGCAAGCTTGGAATTGAGCCTTATGCAGTTGAGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgggaattctggagtgttgatgctacggtgcggttcttgggatttttgtttgcagCGATTTCTAGCCGGTCGATGATGAAGTTTGAGAGTGGGTACACAGTTGAGACCGTGTTTGATGGAAGCAAGCTTGGAATTGAACCCTACTCAATTGAGGT
tgttgat putative branch site (score: 4)
tttttgttt putative PPT
atttttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagagatctttgatactacacgcattggctgcttccttcccttttttttttttttttttggattttggaatttccttttcctgggtattgggtattgggaattctggagtgttgatgctacggtgcggttcttgggatttttgtttgcagCGATTTCTAGCCGGTCGATGATGAAGTTTGAGAGTGGGTACACAGTTGAGACCGTGTTTGATGGAAGCAAGCTTGGAATTGAACCCTACTCAATTGAGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT