Sequence
atgc intronic sequence ATGC exonic sequence...tgaaagaattcctacttattggatgcctcttgtatatgctaatcaaggttttcttggagatgttttctttttctgatatgatatgctcaatcttatacagGTATGGATTTTATGGAGATGTCATTACAGAAAGTGAAAAATACCGCTGGATGGGCCCCAAGCGCTATGATTATGCAGGAACAAAAGTGTTTTTGAGACAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0013g01750.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G47530.1 (Glycine max), 3'ss of exon 9
tgaaagaattcctacttattggatgcctcttgtatatgctaatcaaggttttcttggagatgttttctttttctgatatgatatgctcaatct--tatacagGTATGGATTTTATGGAGATGTCATTACAGAAAGTGAAAAATACCGCTGGATGGGCCCCAAGCGCTATGATTATGCAGGAACAAAAGTGTTTTTGAGACAC
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--aaggaatttgctttgctgctttgttttttgtaaatacttattttcagttaaagaaaattaacagtaactagaaacttgggaaaatgaatatactcctcagGTATGGATTTTATGGTGATGTCATCACAGAGAGTGAGAAGTATCGCTGGATGGGTCCCAAACGTTATGATTACGCTGGAACAATGGTATTTTTAAAGCAC
upper sequence: Vv16s0013g01750.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G14280.1 (Glycine max), 3'ss of exon 9
tgaaagaattcctact-tattgg--atgcctcttgtatatgctaatcaa-ggttttcttggagatgttttctttttctgatatgatatgctcaatcttatacagGTATGGATTTTATGGAGATGTCATTACAGAAAGTGAAAAATACCGCTGGATGGGCCCCAAGCGCTATGATTATGCAGGAACAAAAGTGTTTTTGAGACAC
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tgagacatgtactggtatagtcatcttgcgtatgctacatgttaatccttaattattatatagatttcttcagtattatatcctacattattgacct----cagGTACGGATTTTATGGTGATGTCATCACAGAGAGTGAGAAGTATCGCTGGATGGGTCCCAAACGTTATGATTACGCTGGAACAATGGTATTTTTAAAGCAT
upper sequence: Vv16s0013g01750.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G51290.1 (Arabidopsis thaliana), 3'ss of exon 9
----tgaaagaattcctacttattggatgcctcttgtatatgctaatcaaggttttcttggagatgttttctttttctgatatgatat-gctcaatc---ttatacagGTATGGATTTTATGGAGATGTCATTACAGAAAGTGAAAAATACCGCTGGATGGGCCCCAAGCGCTATGATTATGCAGGAACAAAAGTGTTTTTGAGACAC
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ttattaacagcatcctcaatatcttta-accattagtgcctgtgaaagaaaactt-------gatttctccaatctctaacagagttttgtacaattgattagttcagATACGGGTTTTATGGTGATGTCATTTCAGAAAGTGAAAAATATCGGTGGATGGGTCCCAAACGCTATGACTATGTTGGAACTAAGATATTCTTGAAGCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggttttcttggagatgttttctttttctgatatgatatgctcaatcttatacagGTATGGATTTTATGGAGATGTCATTACAGAAAGTGAAAAATACCGCTGGATGGGCCCCAAGCGCTATGATTATGCAGGAACAAAAGTGTTTTTGAGACAC
ttctgat putative branch site (score: 3)
ttttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaagaattcctacttattggatgcctcttgtatatgctaatcaaggttttcttggagatgttttctttttctgatatgatatgctcaatcttatacagGTATGGATTTTATGGAGATGTCATTACAGAAAGTGAAAAATACCGCTGGATGGGCCCCAAGCGCTATGATTATGCAGGAACAAAAGTGTTTTTGAGACAC
-gaaagaa
- - - - - cctactt
- - - - - - - - - - - -tgcctct
- - - - - - - - - - - - - - - - - - - - - - - - - ttcttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgctc