Sequence
atgc intronic sequence ATGC exonic sequence...acttaattgaatagtttttcatcctttatatgtttcttgaagttgttttatctactatttttagtttaacactttccttctaatgatgaatgcttttcagGCTTGAGGAGCTTCAAGTTTTGGATATCAAGTTTCTTTATGGATGTTCAAAACCAACTATTGTTGTTCTCTACCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 7
acttaattgaatagtttttcatcctttatatgtttcttgaagttgttttatctac-tatttttagtttaacactttccttctaatgatgaatgcttt--tcagGCTTGAGGAGCTTCAAGTTTTGGATATCAAGTTTCTTTATGGATGTTCAAAACCAACTATTGTTGTTCTCTACCAG
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atataac--attaccattcgggggttaatat-ttcattaaggatgatgcatattcgtacatttgaccttaccagagagtaacacttgcattttctttcttcagGCTTGAAGAACTTCAAGTATTGGACATCAAGTTCCTGTATGGCTGTGTTAAACCTACTATAGTTGTCCTCTACCAG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G30530.1 (Glycine max), 3'ss of exon 7
-acttaattgaatagtttttcatcctttatatgtttcttgaagttgttttatctactatttttagtttaacactttccttctaatgatgaatgc-ttttcagGCTTGAGGAGCTTCAAGTTTTGGATATCAAGTTTCTTTATGGATGTTCAAAACCAACTATTGTTGTTCTCTACCAG
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aatttatttcttgtaattttcttccctagtttttctttttcctcttttttgttt-ctggttctgatgtagtttattaaaatta-tggtgcatttgttttcagGCTTGAGGAGCTCCAAGTTTTGGATATCAAATTTCTTTATGGTTGTTCAAAGCCAACTATTGTGGTTCTTTACCAG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 7
acttaattgaatagtttttcatcctttatatgtttcttgaagttgttttatctactatttttagtttaacactttccttctaatgatgaatgc-ttttcagGCTTGAGGAGCTTCAAGTTTTGGATATCAAGTTTCTTTATGGATGTTCAAAACCAACTATTGTTGTTCTCTACCAG
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atttatttcttgtaattttcatacttagtttttctttttcctttttttttgtttctgtttctgatatagtttattaaaatta-tgatgcatttgttttcagGCTTGAGGAGCTCCAAGTTTTGGATATCAAATTTCTTTATGGTTGTTCAAAGCCAACTATTGTGGTTCTTTACCAG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G05420.1 (Arabidopsis thaliana), 3'ss of exon 7
------------------------------------------------------------acttaattgaatagtttttcatcctttatatgtttcttgaagttgttttatcta---ctatttttagtttaacactttccttctaa---tgatgaatgcttttcagGCTTGAGGAGCTTCAAGTTTTGGATATCAAGTTTCTTTATGGATGTTCAAAACCAACTATTGTTGTTCTCTACCAG
||||| | | |||| | | | || | || ||| ||| ||||| | | || | | || | || || | ||||||||||||||| | || ||| |||||||||||||||| | ||||||| |||| || ||||||| || || || |||
gtactctttaattctagtgtgcatttgtttccaggcatcagattctttcgtaaataaactgtttaatcctcaatatactcattcctctagaatcactacgatatgatttttctggggatatttaaaactgaatgatgatgtactgagtgtggtgtctaaatttcagGCTTGAGGAATTGCAGGTTCTGGATATCAAGTTTCTGTTTGGATGTGCAAAGCCCACTATTGCAGTACTATATCAG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S458_4V6.1 (Physcomitrella patens), 3'ss of exon 7
-----acttaattgaatagtttttcatcctttatatgtttcttgaagttgttttatctac-tatttttagtttaacactttccttctaat---------gatgaatgcttttcagGCTTGAGGAGCTTCAAGTTTTGGATATCAAGTTTCTTTATGGATGTTCAAAACCAACTATTGTTGTTCTCTACCAG
||| || | | |||| | | | || |||| || ||| ||| | |||||| ||| | ||| || | | | | | | |||| | || ||||| ||||||||||| ||||||||||||||||| ||| | ||||| ||||||| |||||||| |||
tgttttctttcttccttcttctttctacttctgcatctttccatttctttctttctctttgtgtttttattttttccttttttttttggtttcttaagagGTCTACGTCGCGCAGGTTGGAAGAGCTGCAAGTTTTGGACATCAAGTTTCTTTATGGCTGTGCTAAACCTACTATTGCAGTTCTCTATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttatctactatttttagtttaacactttccttctaatgatgaatgcttttcagGCTTGAGGAGCTTCAAGTTTTGGATATCAAGTTTCTTTATGGATGTTCAAAACCAACTATTGTTGTTCTCTACCAG
ttctaat putative branch site (score: 2)
tgcttttc putative PPT
tactatttttagttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acttaattgaatagtttttcatcctttatatgtttcttgaagttgttttatctactatttttagtttaacactttccttctaatgatgaatgcttttcagGCTTGAGGAGCTTCAAGTTTTGGATATCAAGTTTCTTTATGGATGTTCAAAACCAACTATTGTTGTTCTCTACCAG
- - aattgaa
- - - - - - - - - tcatcct