Sequence
atgc intronic sequence ATGC exonic sequence...catcctttgccttattaattaggtgaaatagaatttacttaaatatgaaatgtaaactggttttgcatttgaagcttctaatgtttctttagtttgacagGCTGTAAATGCAAATGTATCCTTGAAGCGACTGGAGGAACTATTCTTAGCTGAAGAGAGAATTCTTCTACCAAATCCACCTCTTGAACCTGGACTTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os04g52900.2 (Oryza sativa), 3'ss of exon 15
catcctttgccttat-taattaggtgaaatagaatttacttaaatatgaaatgtaaactggttttgcatttgaagcttctaatgtttctttagtttgacagGCTGTAAATGCAAATGTATCCTTGAAGCGACTGGAGGAACTATTCTTAGCTGAAGAGAGAATTCTTCTACCAAATCCACCTCTTGAACCTGGACTTCCAG
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caatgctggcttgagatagttctctgcttttcttgttcaacgactcttttgttagtactcatagt-caccttactattttttttccttttaaatttgacagGTGGTTAATTGTAAAGTGTCATTGAAACGTCTGGAAGATCTCCTCTTGGCTGAAGAGAGATTACTTCTGCCCAATCCACCTCTTGATCCTGAGCTTCCAG
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 15
--catcctttgccttattaattaggtgaaatagaatttacttaaatatgaaatgtaaactggttttgcatttgaagcttctaatgtttctttagtttgacagGCTGTAAATGCAAATGTATCCTTGAAGCGACTGGAGGAACTATTCTTAGCTGAAGAGAGAATTCTTCTACCAAATCCACCTCTTGAACCTGGACTTCCAG
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aaatttgcttacttttattgttatcttaaatgagtgtgaagtgag-atttaatgtgcaccaatgtagttcacattg-tgctaattcttctttggtcttaaagGTGGTTAATGCAAATGTATCGTTGAAGAGACTAGAAGATTTACTCTTAGCAGAAGAGAGAATACTTCTATCAAATCCACCTCTTGAGCCAGGGTTACCAG
upper sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA15G09900.1 (Glycine max), 3'ss of exon 15
----------------------------------------------------------catcctttgccttat-taattaggtgaaatagaatt--tacttaaata-tgaaatgtaaactggttttgcatt--tgaagctt-------ctaatgtttctttagtttgacagGCTGTAAATGCAAATGTATCCTTGAAGCGACTGGAGGAACTATTCTTAGCTGAAGAGAGAATTCTTCTACCAAATCCACCTCTTGAACCTGGACTTCCAG
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gtaagttattctcctttgcaattttcttttgtttctttgattttgcagcaggatgccttatcctatgttttatactctctaataaaatttaattcttgcataagcagtgtagtgagaattaatgctgcaccaatgtagttcacttatcctaattctttttttgtcttaaagGTGGTTAATGCAAACGTATCGTTGAAGCGACTAGAAGATTTACTCTTAGCAGAAGAGAGAGTACTTCTACCAAATCCACCTATTGAGCCAGGATTACCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaaatgtaaactggttttgcatttgaagcttctaatgtttctttagtttgacagGCTGTAAATGCAAATGTATCCTTGAAGCGACTGGAGGAACTATTCTTAGCTGAAGAGAGAATTCTTCTACCAAATCCACCTCTTGAACCTGGACTTCCAG
ttctaat putative branch site (score: 2)
tttcttta CT-rich tract
taatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catcctttgccttattaattaggtgaaatagaatttacttaaatatgaaatgtaaactggttttgcatttgaagcttctaatgtttctttagtttgacagGCTGTAAATGCAAATGTATCCTTGAAGCGACTGGAGGAACTATTCTTAGCTGAAGAGAGAATTCTTCTACCAAATCCACCTCTTGAACCTGGACTTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- -cctttgc
- - - - - - - - - - - - - aatagaa
- - - - - - - - - - - - - - - - - - - - aaatatga
- - - - - - - - - - - - - - - - - - - - - - - - aatgtaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatttg