Sequence
atgc intronic sequence ATGC exonic sequencegtatagtttcagctggaagatctatcaacaattgaataacatatcaaggcaaaaaacttgattttttggtgcatatccatacatttcttcaccatggaatatttcagGATTGTGCTGTTGGTTTACTCTTTGCTTTGCTCCCAGTTTTGGGTGGTAACAGTGGCCTTTTGCAAGGAATGATATCAATGGGAAAGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0022g02060.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA09G27940.1 (Glycine max), 3'ss of exon 12
-------gtatagtttcagctggaagatctatcaacaattgaataacatatcaaggcaaaaaacttgattttttggtgcatatccatacatttcttcaccatggaatatttcagGATTGTGCTGTTGGTTTACTCTTTGCTTTGCTCCCAGTTTTGGGTGGTAACAGTGGCCTTTTGCAAGGAATGATATCAATGGGAAAGCT
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gtatcttgttgagtttaaa-tgttaaactcgttagcttttca-taaagtaatatgctcaaaagttagacttat-attgcatatcaatat-ttcctctaccacttgttatatcagGATTGTGCAGTGGGTTTACTATTTGCTTTGCTCCCAGTTTTGGGTGGTAACAGTGGCCTTTTACAAGGAATAATGTCAATGGGAAAACT
upper sequence: Vv16s0022g02060.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA16G32820.1 (Glycine max), 3'ss of exon 8
gtatagtttcagctggaagatctatcaacaattgaataacatatcaaggcaaaaaacttgattttttggtgcatatccatacatttcttcaccatggaatatttcagGATTGTGCTGTTGGTTTACTCTTTGCTTTGCTCCCAGTTTTGGGTGGTAACAGTGGCCTTTTGCAAGGAATGATATCAATGGGAAAGCT
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--------gtatcttgttgaattttaaatgttaaactcat-tagcttttcataaag--taatattatattgtgtatcaat-ctttcctctaccacttgctatatcaggattgtgcagtgggtttactatttgctttgctcccagttttgggtggtaacagTGGCCTTTTACAAGGACTAATGTCAATGGGAAAACT
upper sequence: Vv16s0022g02060.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT5G51710.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatagtttcagctggaagatctatcaacaattgaataacatatcaaggcaaaaaacttgattttttggtgcatatccatacatttcttcaccatggaatatttcagGATTGTGCTGTTGGTTTACTCTTTGCTTTGCTCCCAGTTTTGGGTGGTAACAGTGGCCTTTTGCAAGGAATGATATCAATGGGAAAGCT
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------------------gtttcactcaca-tcactctatatttacaaattgaatatttcgttttacgaaatttttgtttcctttagcttaatcttgaat-tttcagGACTGTGTTGTTGGTTTACTATTCGCCTTGCTTCCAGTTTTGGGTGGTAACAGTGGTTTACTACAAGGAATTATATCAATGGGAAAGCT
upper sequence: Vv16s0022g02060.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ14698 (Selaginella moellendorffii), 3'ss of exon 10
gtatagtttcagctggaagatctatcaacaattgaataacatatcaaggcaaaaaacttgattttttggtgcatatccatacatttcttcaccatggaatatttcagGATTGTGCTGTTGGTTTACTCTTTGCTTTGCTCCCAGTTTTGGGTGGTAACAGTGGCCTTTTGCAAGGAATGATATCAATGGGAAAGCT
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--------------------------------------------------gtaaaactcgttttgtt--tctttagagaggtttgtacaaatcatcgaacgtt--agGATTGTGCTGTTGGTATATTGTTTGCTTTGCTCCCGGTACTCGGAGGAGAGAGCGGGATGATTCAGGGAGCTTTGTCCATTATTAGAGG
upper sequence: Vv16s0022g02060.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ26360 (Selaginella moellendorffii), 3'ss of exon 10
gtatagtttcagctggaagatctatcaacaattgaataacatatcaaggcaaaaaac--ttgattttttggtgcatatccatacatttcttcaccatggaatatttcagGATTGTGCTGTTGGTTTACTCTTTGCTTTGCTCCCAGTTTTGGGTGGTAACAGTGGCCTTTTGCAAGGAATGATATCAATGGGAAAGCT
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------------------------------------------------gtaaaacacgttttgtttctttagagaggtttgtacaa------atcatcgaacgtt--agGATTGTGCTGTTGGTATATTGTTTGCTTTGCTCCCGGTACTCGGAGGAGAGAGCGGGATGATTCAGGGAGCTTTGTCCATTATTAGAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaacttgattttttggtgcatatccatacatttcttcaccatggaatatttcagGATTGTGCTGTTGGTTTACTCTTTGCTTTGCTCCCAGTTTTGGGTGGTAACAGTGGCCTTTTGCAAGGAATGATATCAATGGGAAAGCT
acttgat putative branch site (score: 5)
ttgatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatagtttcagctggaagatctatcaacaattgaataacatatcaaggcaaaaaacttgattttttggtgcatatccatacatttcttcaccatggaatatttcagGATTGTGCTGTTGGTTTACTCTTTGCTTTGCTCCCAGTTTTGGGTGGTAACAGTGGCCTTTTGCAAGGAATGATATCAATGGGAAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA