Sequence
atgc intronic sequence ATGC exonic sequence...tatggtttttcccatctagggttttccacgtaaatctatgctgtttttttttttttttacttgttgcctattcttaattcaagagttgtcccaattcaagGCCACAATTTATCAACAAAAGGCATTGGACATCAATGAGAGAGAACTAGGACTTGATCATCCAGACACGATGAAGAGTTATGGAGATCTTGCTGTGTTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0388g00080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 16
---tatg-gtttttcccatctagggttttccacgtaaatctatgctgtttttttttttttttacttgttgcctattcttaattcaagagttgtcccaattcaagGCCACAATTTATCAACAAAAGGCATTGGACATCAATGAGAGAGAACTAGGACTTGATCATCCAGACACGATGAAGAGTTATGGAGATCTTGCTGTGTTCT
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caacatgagtattgattaattaaagaag---aattgagaatgtgatgaattgaagttttgaaaaataccccaagtcaatatgcttatcatagaaaaaatgca-gGCTACGATCTATCAGCAAAAGGCCCTAGACATCAATGAGAGGGAACTTGGGCTAGATCACCCTGATACAATGAAGAGTTATGGAGATCTTGCTGTGTTCT
upper sequence: Vv00s0388g00080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G06160.1 (Glycine max), 3'ss of exon 18
tatggtttttcccatctagggttttccacgtaa-atctatgctgtttttttttttttttacttgttg--cctattcttaattcaagag-----ttgtcccaattcaagGCCACAATTTATCAACAAAAGGCATTGGACATCAATGAGAGAGAACTAGGACTTGATCATCCAGACACGATGAAGAGTTATGGAGATCTTGCTGTGTTCT
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--------atttcagccattgtttatgccaaaatatctattctctttttgatttagtagagtttcaggatttgatttcaattcatcaagttttttacttaaatcgcagGCTACAATTTATCAACAAAAAGCTTTGGATATCAACGAGAGAGAGTTAGGTCTGGATCATCCTGATACCATGAAGAGCTATGGGGATCTTGCTGTTTTCT
upper sequence: Vv00s0388g00080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G02770.1 (Glycine max), 3'ss of exon 18
tatggtttttcccatctagggttttccacgtaaatctatgctgtttttttttttttttacttgttg--cctattcttaattcaagag-----ttgtcccaattcaagGCCACAATTTATCAACAAAAGGCATTGGACATCAATGAGAGAGAACTAGGACTTGATCATCCAGACACGATGAAGAGTTATGGAGATCTTGCTGTGTTCT
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-------ttgtttatttgcacctatgccaaaatatcttttctcttttagatttagtaaagtttctggatttgatttcaattcatcaagttttttacttaaatcgcagGCTACCATTTATCAACAAAAAGCTTTGGATATCAACGAGAGGGAGTTAGGTCTGGATCATCCTGATACCATGAAGAGCTATGGGGATCTTGCTGTTTTCT
upper sequence: Vv00s0388g00080.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G01320.1 (Arabidopsis thaliana), 3'ss of exon 18
tatggtttttcccatctagggttttccacgtaaatctatgctgtttttttttttttttacttgttgcctattcttaattcaagagttgtcccaattcaagGCCACAATTTATCAACAAAAGGCATTGGACATCAATGAGAGAGAACTAGGACTTGATCATCCAGACACGATGAAGAGTTATGGAGATCTTGCTGTGTTCT
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-------------gtct-gtatatattatatggttagattgtgatatctttcctttata-----tgacaattgtgaaactaaaagattttgttaaaacagGCTACAATATATCAGCAAAAGGCTTTAGACATCAATGAGAGGGAACTTGGACTTGATCATCCAGATACAATGAAGAGTTATGGTGATCTTGCTGTCTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttttttttttacttgttgcctattcttaattcaagagttgtcccaattcaagGCCACAATTTATCAACAAAAGGCATTGGACATCAATGAGAGAGAACTAGGACTTGATCATCCAGACACGATGAAGAGTTATGGAGATCTTGCTGTGTTCT
tcttaat putative branch site (score: 3)
ttgtccc putative PPT
ttttttttacttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatggtttttcccatctagggttttccacgtaaatctatgctgtttttttttttttttacttgttgcctattcttaattcaagagttgtcccaattcaagGCCACAATTTATCAACAAAAGGCATTGGACATCAATGAGAGAGAACTAGGACTTGATCATCCAGACACGATGAAGAGTTATGGAGATCTTGCTGTGTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - cccatct
- - - - - - - - - - - - -ccacgta