Sequence
atgc intronic sequence ATGC exonic sequencegtaaatatttgcttggtccctattagtctgtaatggtcaaatttgacttattaaagatctttcacaaactggtttatgcgcagGTTGATGATCATTTTTACATATATTTGGAATATGTTCATCCTGGATCCATAAATAAATATGTTGATCATTTTGGAGCTATGACAGAAAATGTAGTTCGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g55560.2 (Oryza sativa), 3'ss of exon 4
gtaaatatttgcttggtccctattagtctgtaatggtcaaatttgacttattaaag-atctt-tcacaaactggtttatgcgcagGTTGATGATCATTTTTACATATATTTGGAATATGTTCATCCTGGATCCATAAATAAATATGTTGATCA---TTTTGGAGCTATGACAGAAAATGTAGTTCGAA
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gtaagttctcatgtg--ccaaattgag--gtgata-ttatgcgctagttattaatgtatccaatgatcatctggatactttgcagATTGAAGATCGATTCTACATATACCTGGAATATGTTCACCCTGGTTCAATTAATAAATATGTTAATCAACATTGTGGAGCAATGACAGAATCAGTAATCC---
upper sequence: Vv18s0001g11240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G03870.3 (Glycine max), 3'ss of exon 6
-----gtaaatatttg--cttggtccctat-tagtctgtaat-----ggtcaaatttga-----------cttattaa--agatc--tttcacaaactggtttatgcgcagGTTGATGATCATTTTTACATATATTTGGAATATGTTCATCCTGGATCCATAAATAAATATGT---TGATCATTTTGGAGCTATGACAGAAAATGTAGTTCGAA
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gtgagttaattattggttctcgttccaaatataatttacagtttacagaaaaaatttaaggatctttgttcttgtgaataagatgaatttgtgaaacatcttggttttcagGTTGGTGATCGATTGTACATATATATGGAGTATGTTCATCCTGGATCACTTCATAAGTTTATGCATGAACATTGTGGAGCTATGACAGAGTCCGTGGTTC---
upper sequence: Vv18s0001g11240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G03970.1 (Glycine max), 3'ss of exon 5
-----gtaaatatttgct-tggtccctattagtctgtaatggtca------aatttga-----------cttatta--aagatc---tttcacaaactggtttatgcgcagGTTGATGATCATTTTTACATATATTTGGAATATGTTCATCCTGGATCCATAAATAAATATGT---TGATCATTTTGGAGCTATGACAGAAAATGTAGTTCGAA
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gtgagttaattattggttcttgttccaagtatactatactgtttacagaaaaatccaaggatctttgttcttgtgaataagattgaatttgtgacacatcttggttttcagGTTGGTGATCGATTGTACATATATATGGAGTATGTTCATCCTGGATCACTTCATAAATTTATGCATGAACATTGTGGAGCTATGACAGAGTCTGTGGTTC--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaatggtcaaatttgacttattaaagatctttcacaaactggtttatgcgcagGTTGATGATCATTTTTACATATATTTGGAATATGTTCATCCTGGATCCATAAATAAATATGTTGATCATTTTGGAGCTATGACAGAAAATGTAGTTCGAA
atttgac putative branch site (score: 4)
aaatttgacttattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatatttgcttggtccctattagtctgtaatggtcaaatttgacttattaaagatctttcacaaactggtttatgcgcagGTTGATGATCATTTTTACATATATTTGGAATATGTTCATCCTGGATCCATAAATAAATATGTTGATCATTTTGGAGCTATGACAGAAAATGTAGTTCGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT