Sequence
atgc intronic sequence ATGC exonic sequencegtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactaatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0041g02010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G00980.1 (Glycine max), 3'ss of exon 4
gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactaatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACA
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gtaatttc-ccttcccttttgctc--ctacaaatgttctttcaaattgttttacaaactagactagc-atacccgtggttgtgcaaattatagGTTTTGATGGAGTTGAGATCCATGGGGCTCATGGTTACCTTATTGATCAATTCCTGAAAGATAAGGTGAATGACCGAACAGACCAATATGGTGGATCCCT
upper sequence: Vv18s0041g02010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G44600.1 (Glycine max), 3'ss of exon 3
gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactaatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACA
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gtaatttcccccaccttttgctcctgccaaatactaatgtttcaaataccctgccaaatactaacatcatatccatggctgtgcaaattgtagGTTTTGATGGGGTTGAGATCCATGGGGCTCATGGCTACCTGCTTGAGCAATTTATGAAAGATAAAGTGAATGACCGAACAGACGAATATGGTGGATCCCT
upper sequence: Vv18s0041g02010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 4
------------gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactaatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACA
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gtaatttgcctggaaaacaaaatttcacacacatgtactaagatctttaaattttacataatatgaaatgtaatgtaagtatctaacatacaaatccatgtgtagGTTTTGATGGGGTTGAGATCCACGGTGCTCATGGCTACTTACTTGAGCAATTCATTAAAGACAAAGTGAATGATCGAAGTGATGGATATGGTGGATCCCT
upper sequence: Vv18s0041g02010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G25570.1 (Glycine max), 3'ss of exon 4
----gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgat-gcactaatga--taatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACA
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atgagtggagttgcactttaatgtatatgatataggcatgatgttaaactgggattttcgaattaagttcatcaattcctaaccacaattgcaattgtagGGTTTGATGGAGTTGAGATCCATGGGGCACATGGTTTTCTAATTGATCAATTTTTGAAAGACCAAGTTAACGACAGAACAGACAAATACGGTGGATCATT
upper sequence: Vv18s0041g02010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G35410.1 (Glycine max), 3'ss of exon 4
------------gtaaattcatcctctaatacaat-taatcatga-attaactttctagtcaatttcttcgatgcactaatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATC-ACA
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tcatatacctgagtggagtttcactttaatatgatatagtcatgatgttaaact----gtgattctcaaagatattcaattcctaaccgcaattgc--aat-tgtagGGTTTGATGGAGTTGAGATACATGGGGCACATGGTTTTCTAATTGATCAGTTTTTGAAAGATCAAGTTAACGACAGAACAGACAAATATGGTGGATCCAC-
upper sequence: Vv18s0041g02010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ20558 (Selaginella moellendorffii), 3'ss of exon 4
gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactaatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACA
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-------------------------gtgttaaactatgcttctttctttctagtttcatgggctaacgaaaaactgg----------gtgtagGCTTTGATGGTGTTGAGATCCATGGGGCTCACGGCTATCTGATCGACCAATTCCTGAAAAATGGTGTCAACGATAGAACGGATGAGTATGGTGGTTCTTTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|161720033|gb|FC067751.1|FC067751EST: TCGAGTTGTCAATGATTTTAGACTTGCTGCAAGAAATGCTATGGAAACTG GTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGT
genomic: TCGAGTTGTCAATGATTTTAGACTTGCTGCAAGAAATGCTATGGAAGCTGgtaaattcat ... caatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctagtcaatttcttcgatgcactaatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACA
cactaat putative branch site (score: 2)
tttaccc putative PPT
taatgataatattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaattcatcctctaatacaattaatcatgaattaactttctagtcaatttcttcgatgcactaatgataatattgtttacccaatatatagGTTTTGATGGAGTTGAGATCCATGGAGCTCATGGCTATCTACTTGACCAGTTCATGAAAGACCAGGTCAATGATCGAACAGACAAGTATGGTGGATCACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA