Sequence
atgc intronic sequence ATGC exonic sequence...aataagggaaagtaagaaagagctgcaattcaagatttccaactgttctcctaaatgcatctctggtgattgtcatactaatgtccagtttggctttcagGTACATGGCACCAGAGTATGCATCAAGTGGGAAATTGACTGATAGATCTGATGTATTCTCATTCGGGGTGGTACTTTTAGAGCTTATAACAGGGCGTAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0127g00670.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G39480.1 (Glycine max), 3'ss of exon 7
aataagggaaagtaagaaagagctgcaattcaagatttccaactgttctcctaaatgcatctctggtga--ttgtcatactaa----tgtccagtttggctttcagGTACATGGCACCAGAGTATGCATCAAGTGGGAAATTGACTGATAGATCTGATGTATTCTCATTCGGGGTGGTACTTTTAGAGCTTATAACAGGGCGTAAA
| ||| | || | | | | | || | ||| || || | | || | || || | || || ||||||||||||||| ||||| |||||| ||||||| ||||| || |||||||| ||||| |||||||| ||||| || || | |||||| |||| || | |||
-----aaacatgtagttcaataatgtagatacatttgctggaaaaccttcttcaata-atgtccaataaaattactacaccaactcgtttctgactttaatttcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACGGATAGATCAGATGTTTTCTCATTTGGGGTTGTCCTCCTTGAGCTTGTAACTGGAAGGAAA
upper sequence: Vv01s0127g00670.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA02G04010.1 (Glycine max), 3'ss of exon 6
aataagggaaagtaagaaagagctgcaattcaagatttccaactgttctcctaaatgcatctctggtgattgtcatactaat---gtccagtttggcttt-cagGTACATGGCACCAGAGTATGCATCAAGTGGGAAATTGACTGATAGATCTGATGTATTCTCATTCGGGGTGGTACTTTTAGAGCTTATAACAGGGCGTAAA
|| || | || || |||| || | || | | |||||| || | | ||||||||| || || || || |||||||||||| |||||||||||| ||||||| ||||| || |||||||| ||||| ||||| || || || || ||| | ||||||||||| || | |||
---gtttgagtttataatggaaacattatcaaagaaaaccttcagtaatgccaaatgctaaactaa-aactatcatactaactcattctagcttcatttcgcagGTACATGGCTCCAGAGTATGCAACAAGTGGAAAATTAACAGATAGATCAGATGTTTTCTCTTTTGGAGTTGTCCTTCTTGAGCTTATAACTGGAAGGAAA
upper sequence: Vv01s0127g00670.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G19100.1 (Glycine max), 3'ss of exon 5
aataagggaaagtaagaaag-agctgcaattcaagatttccaactgttctccta-aatgcatctctgg-tgattgtc-atactaatgtccagtttggctttcagGTACATGGCACCAGAGTATGCATCAAGTGGGAAATTGACTGATAGATCTGATGTATTCTCATTCGGGGTGGTACTTTTAGAGCTTATAACAGGGCGTAAA
| | ||| || | || |||| || | || || | | | ||||| | | | | | ||| || || | || || |||||||||||| ||||| |||||| ||||||| ||||| || || ||||| ||||| |||||||| ||||| || || | |||||| |||| || | |||
----aaatattttaataatgtagatgcatttgccggccggaaaacctttttcaataatgcccaattaaattactacagaaactcatttctggcttcaattacagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACAGACAGATCAGATGTTTTCTCATTTGGGGTTGTCCTCCTTGAGCTTGTAACGGGAAGGAAA
upper sequence: Vv01s0127g00670.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G03690.1 (Glycine max), 3'ss of exon 6
aataagggaaagtaagaaagagctgcaattcaagatttccaactgttctcctaaatgcatctctggtgattgtcatactaat---gtccagtttggcttt-cagGTACATGGCACCAGAGTATGCATCAAGTGGGAAATTGACTGATAGATCTGATGTATTCTCATTCGGGGTGGTACTTTTAGAGCTTATAACAGGGCGTAAA
| | | || | || || || || | || | | |||||| || | | || ||| | || || || || |||||||||||| ||||| |||||| ||||||| ||||| || |||||||| ||||| ||||| || || || || || | ||||||||||| || | |||
--ttttgaagtttataatggaaactttatcagggaaaaccttcagtaatgccaaatgctaaactaa--actaccacacttactcattctagcttcatttcgcagGTACATGGCTCCAGAATATGCAACAAGTGGAAAATTAACAGATAGATCAGATGTTTTCTCTTTTGGAGTTGTCCTCCTTGAGCTTATAACTGGAAGGAAA
upper sequence: Vv01s0127g00670.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G23540.1 (Arabidopsis thaliana), 3'ss of exon 5
--------------------------------------------------------aataagggaaagtaagaaagagctgcaattcaagatttccaactgttctcctaaatgcatctctggtgattgtcatacta-atgtccagtttggctttcagGTACATGGCACCAGAGTATGCATCAAGTGGGAAATTGACTGATAGATCTGATGTATTCTCATTCGGGGTGGTACTTTTAGAGCTTATAACAGGGCGTAAA
| | | ||||| | | | | | || | || || || | || |||| | |||| || || ||| | |||| | || |||||| | || || || |||||||||||||| ||||||||||||||||| |||||||||||||||||||| || || ||||||||| |||| || || |||
gtaagcaaacattcatcacaaactctactccaaaactggaccttattgatccaatgcctgatgaaaagtttgttata--tatggcttgaggcaacaaattgga-tcaaacctgaatctttattgatcgtatggctgcatgacatgttttgtgttaagGTACCTAGCGCCGGAATATGCATCAAGTGGAAAATTGACTGATAGATCCGATGTATTCTCATTCGGGGTTGTTCTCTTAGAGCTTGTAACTGGACGGAAA
upper sequence: Vv01s0127g00670.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G70460.1 (Arabidopsis thaliana), 3'ss of exon 5
----------------------------------------aataagggaaagtaagaaagagc---tgcaa---ttcaagatttccaactgttctcctaaatgcatc---tctggtgattgtcata----ctaat--gtccagtttggctttcagGTACATGGCACCAGAGTATGCATCAAGTGGGAAATTGACTGATAGATCTGATGTATTCTCATTCGGGGTGGTACTTTTAGAGCTTATAACAGGGCGTAAA
|||||| | || | | ||| || | | | | || | || || || |||| | | | | ||| | || ||| | | |||||||| |||||||||| |||||| |||||| || ||||||||||||| ||||| ||||| || ||||| || || ||||||||||||||||| || |||
gtaagattgatcacaaattctttattaaactactagatatgataaggatgaactagtttgcttgtatacaaaggttagaaggtattacttattgccatatattaataacatctgagaagtacctaagcctctattttgttggcttttgttatcagGTACTTGGCACCAGAATATGCACAAAGTGGAAAGCTGACTGATAGATCAGATGTTTTCTCGTTTGGGGTTGTTCTCTTAGAGCTTATAACAGGACGCAAA
upper sequence: Vv01s0127g00670.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G70450.1 (Arabidopsis thaliana), 3'ss of exon 4
aataagggaaagtaagaaagagctgcaattcaagatttccaactgttctcctaaatgcatctctggtgattgtcatactaatgtc-cag--tttggctttcagGTACATGGCACCAGAGTATGCATCAAGTGGGAAATTGACTGATAGATCTGATGTATTCTCATTCGGGGTGGTACTTTTAGAGCTTATAACAGGGCGTAAA
| | || || | || | | | ||| | | ||| | |||| | || | ||||||| || ||| | | |||||||| |||||||||| |||||| |||||| || | ||||||||||| ||||| ||||| || || || || || |||||||||||||| || || |||
taaatctgattgtgatgaactagtacgtatagagaggttaagaggttat---aaattgttgaaaagtacataagcctctaatgttataggcttttgttatcagGTACTTGGCACCAGAATATGCACAAAGTGGACAACTTACTGATAGATCAGATGTTTTCTCGTTTGGAGTTGTTCTCTTAGAGCTTATAACTGGACGCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctcctaaatgcatctctggtgattgtcatactaatgtccagtttggctttcagGTACATGGCACCAGAGTATGCATCAAGTGGGAAATTGACTGATAGATCTGATGTATTCTCATTCGGGGTGGTACTTTTAGAGCTTATAACAGGGCGTAAA
tactaat putative branch site (score: 1)
ctttc putative PPT
atactaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aataagggaaagtaagaaagagctgcaattcaagatttccaactgttctcctaaatgcatctctggtgattgtcatactaatgtccagtttggctttcagGTACATGGCACCAGAGTATGCATCAAGTGGGAAATTGACTGATAGATCTGATGTATTCTCATTCGGGGTGGTACTTTTAGAGCTTATAACAGGGCGTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - agggaaa
- - - - - - - agaaaga
- - - - - - - - - - - ctgcaat
- - - - - - - - - - - - - - - - - - - - - - - - - - -aatgcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctggtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgtcc