Sequence
atgc intronic sequence ATGC exonic sequencegttcctaattattctcctatatttgatttttgtttctttttttctttctttttcgtttactactgttttttatgatcttgggtggttgatttgtagGTGCAACACCTGATAGAGAAGTGCTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAGACATCAACCAAGTCATCACCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0317g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G43720.1 (Glycine max), 3'ss of exon 1
gttcctaattattctcctatatttgatttttgtttctttttttctttctttttcgtt-tactactgttttt-tatgatcttgggtggttgatt--tgtagGTGCAACACCTGATAGAGAAGTGCTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAGACATCAACCAAGTCATCACCT
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------------gtatatatatatagctttaaattctttgttattgttataaagatcatcgtgttgttttgacaagttttctacgaattaattaatatagGTGCAGCATCTGATCGAGAAGTGTTTGATCTTTCACATGACCAAGGAAGAATGCATGGAAGCGCTCTCTAAACATGCAAATATTAATCCTATTATAACAT
upper sequence: Vv00s0317g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G52240.1 (Glycine max), 3'ss of exon 1
--------gttcctaattattctcctatatttgatttttgtttctttttttctttctttttcgtttactactgttttttatgatcttgggtggttgatttg--------tagGTGCAACACCTGATAGAGAAGTGCTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAGACATCAACCAAGTCATCACCT
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gtaagagagcagctagcttcaacttcagctttaattatcttcaatttttattttttgtgttgatcatatgtaccctttcatgatcgttg-tgatatgtttggatacaattagGTGCACCACCTGATTGAGAAGTGTTTGACCTTTCACATGTCAAAGGAAGAGTGCATGGAAGCTCTCTCCAAGCATGCAAATATTAAGCCTGTCATAACAT
upper sequence: Vv00s0317g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G38420.1 (Glycine max), 3'ss of exon 1
gttcctaattattctcctatatttgatttttgtttctttttttctttctttttcgtttactactgttttttatgatcttgggtggttgatttgtagGTGCAACACCTGATAGAGAAGTGCTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAGACATCAACCAAGTCATCACCT
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-------gtaatattatagctttaaattatttcttattataagaccatcgttttgttttgacaagttttctacgaatt-----aattgat--atagGTGCAGCATCTGATCGAGAAGTGTTTGATCTTTCACATGACCAAGGAAGAATGCATGGAAGCTCTCTCTAAACATGCAAATATTAATCCTATTATAACAT
upper sequence: Vv00s0317g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G10620.1 (Glycine max), 3'ss of exon 1
-----------gttcctaattattctcctatatttgatttttgtttctttttttctttctttttcgtttactac-tgttttttatgatcttgggtggttgatttgtagGTGCAACACCTGATAGAGAAGTGCTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAGACATCAACCAAGTCATCACCT
|| | | |||| ||| ||||| ||| |||| || || | | | | || | || ||| | || ||| | | | |||||||| ||| |||| |||||||| |||||||| |||||| || ||||| ||||||||||| |||||||| |||||| | || || | ||||| || |
gtaagagggctagctacaacttctgctctatctttctttttttttttttttgtttgatcatatatacccctttcatgatcgttgtga-catgcttggataaaat-tagGTGCAGCACATGATTGAGAAGTGTTTGATCTTTCACATGTCAAAGGAAGAATGCATGGAAGCTCTCTCCAAGCATGCAAATATTAAGCCTGTCATAACAT
upper sequence: Vv00s0317g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G55240.1 (Arabidopsis thaliana), 3'ss of exon 1
----------------------gttcctaattattctcctatatttgatttttgtttctttttttctttctttttcgtttactactgttttttatgatctt-gggtggttg-----atttgtagGTGCAACACCTGATAGAGAAGTGCTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAGACATCAACCAAGTCATCACCT
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gtaatattatattgattcaagaacctcatgtacttctccggccgtcgattct-atgaatgatcttatctatttatcttttacgtatgtacctcaatatctttggatgtgtgtatgtatgtatagGTGCAGCACATGATAGAGAAATGTTTGATCTTCCATATGAGCAAAGAAGAGTGTGTGGAAGCTCTCTCTAAGCATGCAAACATCACTCCTGTCATCACCT
upper sequence: Vv00s0317g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G28990.1 (Arabidopsis thaliana), 3'ss of exon 1
----------------gttcctaattattctcctatatttgatttttgtttctttttttctttctttttcgtttactactgtt--ttttatgatcttgggtggttgatttgtagGTGCAACACCTGATAGAGAAGTGCTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAGACATCAACCAAGTCATCACCT
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gtaataactcgaacatgtgcatgcgtttcttctcatgaaggaacagtttcttttaggtacattcttaagggtatatatataaaaacgtgatagtgtgtcatgtgttatgtatagGTGCAACACATGATAGAGACATGTTTGACCTTTAACATGAGCAAAGAGGAATGCATGGAAGCTCTCTCAGAGAATGCAAACATCAATCCCATCATCACGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctttctttttcgtttactactgttttttatgatcttgggtggttgatttgtagGTGCAACACCTGATAGAGAAGTGCTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAGACATCAACCAAGTCATCACCT
ggttgat putative branch site (score: 5)
ttttttatgatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcctaattattctcctatatttgatttttgtttctttttttctttctttttcgtttactactgttttttatgatcttgggtggttgatttgtagGTGCAACACCTGATAGAGAAGTGCTTGATCTTCCACATGAGTAAAGAAGAGTGCATGGAAGCCCTCTCCAAACATGCAGACATCAACCAAGTCATCACCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG