Sequence
atgc intronic sequence ATGC exonic sequencegtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactgatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0041g02050.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G00980.1 (Glycine max), 3'ss of exon 4
gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactgatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACT
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gtaatttc-ccttcccttttgctc--ctacaaatgttctttcaaattgttttacaaactagactagc-atacccgtggttgtgcaaattatagGTTTTGATGGAGTTGAGATCCATGGGGCTCATGGTTACCTTATTGATCAATTCCTGAAAGATAAGGTGAATGACCGAACAGACCAATATGGTGGATCCCT
upper sequence: Vv18s0041g02050.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G44600.1 (Glycine max), 3'ss of exon 3
gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactgatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACT
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gtaatttcccccaccttttgctcctgccaaatactaatgtttcaaataccctgccaaatactaacatcatatccatggctgtgcaaattgtagGTTTTGATGGGGTTGAGATCCATGGGGCTCATGGCTACCTGCTTGAGCAATTTATGAAAGATAAAGTGAATGACCGAACAGACGAATATGGTGGATCCCT
upper sequence: Vv18s0041g02050.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 4
------------gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactgatgataatattgtttac---ccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACT
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gtaatttgcctggaaaacaaaatttcacacacatgtactaagatctttaaattttacataatatga--aatgtaatg-taagtatctaacatacaaatccatgtgtagGTTTTGATGGGGTTGAGATCCACGGTGCTCATGGCTACTTACTTGAGCAATTCATTAAAGACAAAGTGAATGATCGAAGTGATGGATATGGTGGATCCCT
upper sequence: Vv18s0041g02050.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G25570.1 (Glycine max), 3'ss of exon 4
----gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgat-gcactgatga--taatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACT
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atgagtggagttgcactttaatgtatatgatataggcatgatgttaaactgggattttcgaattaagttcatcaattcctaaccacaattgcaattgtagGGTTTGATGGAGTTGAGATCCATGGGGCACATGGTTTTCTAATTGATCAATTTTTGAAAGACCAAGTTAACGACAGAACAGACAAATACGGTGGATCATT
upper sequence: Vv18s0041g02050.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G35410.1 (Glycine max), 3'ss of exon 4
------------gtaaattcatcctctaatacaat-taatcatga-attaactttctagtcaatttcttcgatgcactgatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACT
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tcatatacctgagtggagtttcactttaatatgatatagtcatgatgttaaact----gtgattctcaaagatattcaattcctaaccgcaattgc--aat-tgtagGGTTTGATGGAGTTGAGATACATGGGGCACATGGTTTTCTAATTGATCAGTTTTTGAAAGATCAAGTTAACGACAGAACAGACAAATATGGTGGATCCAC
upper sequence: Vv18s0041g02050.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ20558 (Selaginella moellendorffii), 3'ss of exon 4
gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactgatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACT
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-------------------------gtgttaaactatgcttctttctttctagtttcatgggctaacgaaaaactgg----------gtgtagGCTTTGATGGTGTTGAGATCCATGGGGCTCACGGCTATCTGATCGACCAATTCCTGAAAAATGGTGTCAACGATAGAACGGATGAGTATGGTGGTTCTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctagtcaatttcttcgatgcactgatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACT
cactgat putative branch site (score: 3)
tttaccc putative PPT
atgataatattgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactgatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA