Sequence
atgc intronic sequence ATGC exonic sequencegtatgctcttatcgatcttcatttttttctagacctttttctcagtctttcacttcttgttatgtgtatgctgcatctgactatattattgactgtcttaaatagAAATAAGGAGATTCTATGGAATGGAACATGGCGGAGGATATGATGCTTGGAGGAGAACATCAGTTGTTGCTACCCCTTTTGATTTTGACAAAGCAGAGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G11120.1 (Glycine max), 3'ss of exon 7
gtatgctcttatcgatcttcatttttttctag-acctttttctcagtctttcacttcttgttatgtgtatgctgcatctgactatattattgactgtcttaaatagAAATAAGGAGATTCTATGGAATGGAACATGGCGGAGGATATGATGCTTGGAGGAGAACATCAGTTGTTGCTACCCCTTTTGATTTTGACAAAGCAGAGTC
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-caaatgaatagtgtaacctattctttactattatttactttcttcttgtttgctatttgatttg-atttcttacatgt----atttcatgtgtctcatttaatagAGATAAGGCGTTTCTATGGGGTGGAACATGGTGGAGGGTATGATGCTTGGAGAAAAACATCCGTTTTAGCTACCCCTTTTGATTTTGACAAAGCACAATC
upper sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G11550.1 (Glycine max), 3'ss of exon 7
-gtatgctcttatcgatcttcatttttttctagacctttttctcagtctttcacttcttgttatgtgtatgctgcatctgactatattattgactgtc-ttaaatagAAATAAGGAGATTCTATGGAATGGAACATGGCGGAGGATATGATGCTTGGAGGAGAACATCAGTTGTTGCTACCCCTTTTGATTTTGACAAAGCAGAGTC
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agtagggaccaaatgaat---agtgaaaccta---ttctttactattctttactttattcttgtttgctaattg-atttgatttcttacatgtgtctcatttaatagAGATAAGGCGTTTCTATGGGGTGGAACATGGTGGAGGGTATGATGCCTGGAGAAAAACATCTGTTTTAGCTACCCCTTTCGATTTTGACAAAGCACAATC
upper sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G36180.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgctcttatcgatcttcatttttttctagacctttttctcagtctttcacttcttgttatgtgtatgctgcatctgac-tatattattgactgtcttaaatagAAATAAGGAGATTCTATGGAATGGAACATGGCGGAGGATATGATGCTTGGAGGAGAACATCAGTTGTTGCTACCCCTTTTGATTTTGACAAAGCAGAGTC
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---------------------gtatggtcttgcatcctggggcagtggttttttttttctaggctatatgct-tatgtaatgtactgtttcgcttttgtttgatagAGATAAGACGGTTTTACGGTATGGAACATGGTGGAGGATATGATTCTTGGAGGAAAACATCGGTTGTAGCCTCTCCTTTTGATTTTGATGAAGCTGAATC
upper sequence: Vv18s0001g04980.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G36160.1 (Arabidopsis thaliana), 3'ss of exon 8
gtatgctcttatcgatcttcatttttttctagacctttttctcagtctttcacttcttgttatgtgtatgctgcatctgactatattattgactgtcttaaatagAAATAAGGAGATTCTATGGAATGGAACATGGCGGAGGATATGATGCTTGGAGGAGAACATCAGTTGTTGCTACCCCTTTTGATTTTGACAAAGCAGAGTC
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gtataatctac---gtccttatttcttacaggcagcggttcctcttcttta--tccatgc-acacgaataatgta-ctgtctgtttctct---ttaatttcgtagAGATAAGACGGTTCTATGGAATAGAACATGGTGGAGGTTATGATTCTTGGCGAAAAACATCTGTTGTAGCCTTCCCTTTTGATTTTGATAAAGCTCAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacttcttgttatgtgtatgctgcatctgactatattattgactgtcttaaatagAAATAAGGAGATTCTATGGAATGGAACATGGCGGAGGATATGATGCTTGGAGGAGAACATCAGTTGTTGCTACCCCTTTTGATTTTGACAAAGCAGAGTC
tattgac putative branch site (score: 2)
ctgtctt CT-rich tract
actatattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctcttatcgatcttcatttttttctagacctttttctcagtctttcacttcttgttatgtgtatgctgcatctgactatattattgactgtcttaaatagAAATAAGGAGATTCTATGGAATGGAACATGGCGGAGGATATGATGCTTGGAGGAGAACATCAGTTGTTGCTACCCCTTTTGATTTTGACAAAGCAGAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA