Sequence
atgc intronic sequence ATGC exonic sequence...atgtgaaaattcaaaagatcctcctcattcctttactacatcgttaagctgccctggatttgttctctttttcttgatgtcataaatgtttgctatccagGGGGGACATTTCTCTGGTATTTATCGGAAGGTTCAACTAAAGCCACTAAAGTGGGTTAAAGTTCCAAAAAGTAATGGTGAAGGTGAAGAAGAACGGCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os03g48300.3 (Oryza sativa), 3'ss of exon 15
---atgtgaaaattcaaaagatcctcctcattcctttactacatcgttaagctgccctggatttgttctctttttcttgatgtcataaatgtttgctat-ccagGGGGGACATTTCTCTGGTATTTATCGGAAGGTTCAACTAAAGCCACTAAAGTGGGTTAAAGTTCCAAAAAGTAATGGTGAAGGTGAAGAAGAACGGCCTG
| | || | || |||| | || | | || | | || | | | || ||| || | |||| | | |||| || |||||||||||||||||| | || || |||||||||||||| || ||| ||| ||||||||| | |||||| |||||||| ||||| ||
gccttctaaagggtgctggcatatctgtcataacaaggttataccattcttttacaagaatgctgacatatgataatttttgttatca----ttgcaacactagGGTGGGCATTTCTCTGGTATTTATAGAAAAGTGCAACTAAAGCCACTGAAATGGATTAGAGTTCCAAAGCGCTGTGGTGATGGTGAAGAGGAACGACCAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 17
atgtgaaaattcaaaagatcctcctcattcct-ttactacatcgtt---aagctgc-cctggatttgttctctttttcttgatgtcataaatgtttgctatccagGGGGGACATTTCTCTGGTATTTATCGGAAGGTTCAACTAAAGCCACTAAAGTGGGTTAAAGTTCCAAAAAGTAATGGTGAAGGTGAAGAAGAACGGCCTG
|| | | || | ||| || || |||||| || || | || | ||||| ||| | || | | | | || ||||| |||||||||||||| || ||| |||| |||||||||||||||||||||||||| ||||| ||||| | |||||||||| ||||||| ||| ||
ttgagtgtccttttaaagcctgtaaaattgctatttttacatcttttttaaccaaagtcttaaattgtttcatttcttttccttttcttcacatta-----tcagGGAGGACATTTCTCTGGCATCTATAGGAAAGTTCAACTAAAGCCACTAAAGTGGGTCAAAGTGACAAAAGGCAATGGTGAAGTTGAAGAACAACCTGTTG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 13
--atgtgaaaattcaaaagatcctcctcattcctttactaca-tcgttaagctgccctggatttgttctctttttcttgatgtcataaatgtttgctatccagGGGGGACATTTCTCTGGTATTTATCGGAAGGTTCAACTAAAGCCACTAAAGTGGGTTAAAGTTCCAAAAAGTAATGGTGAAGGTGAAGAAGAACGGCCTG
| | | | | | || | | | | | | ||| | ||| | | | | ||| | || | | || |||| |||| || ||||||||||| || ||| ||||||| ||| ||||||||||||||||| | ||||| | ||||| ||||||||||||| ||||||||| ||||
ctgcataacagcagctttggttttatatttttcataattgtaataaaaaagacttcagacgtttcatgtactacttttgttttcttt--tattcaatatc-agGGTGGGCATTTCTCTGGCATATATAGGAAGGTCCAATTAAAGCCACTAAAGTGGATCAAAGTGGCCAAAAGCAATGGTGAAGGTGCAGAAGAACGACCTG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 15
atgtgaaaattcaaaagatcc---tcctcattcctttactacatcgttaagctgccctggatttgttc-tctttttcttgatgtcataaatgtttgctatccagGGGGGACATTTCTCTGGTATTTATCGGAAGGTTCAACTAAAGCCACTAAAGTGGGTTAAAGTTCCAAAAAGTAATGGTGAAGGTGAAGAAGAACGGCCTG
|||| | || || | | | ||| | | | || | | || || ||| | | ||||| | | | | || |||| |||| || ||||||||||| || ||| | ||||||||| ||||||||||||||||| | ||||| | ||||| || |||||||||||||||||||| ||||
-cctgaataa-cagcagctttgaatttttatttttcataattttaatcaaaaagtcttgagttgtttcatgtacttctttgttttcttt-tattcaatatc-agGGCGGGCATTTCTCTGGCATATATAGAAAGGTTCAATTAAAGCCACTAAAGTGGATCAAAGTGGCCAAAAGCAACGGTGAAGGTGAAGAAGAACGACCTG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 13
---------atgtgaaaattcaaaagatcctcctcattcctttactacatcgttaagctgccctggatttgttctctttttcttgatgtcataaatgtttgctatccagGGGGGACATTTCTCTGGTATTTATCGGAAGGTTCAACTAAAGCCACTAAAGTGGGTTAAAGTTCCAAAAAGTAATGGTGAAGGTGAAGAAGAACGGCCTG
| | ||| | || || || || | | | | | || | | || ||| ||| || || | | || | | |||| |||| |||||||||||||| || ||| |||| |||||||||||||||||||||||| | ||| | |||| |||||||||| ||||||| ||| ||
ttgcatgtccttttaaagcccgtaaaattgctatctttacatcttttt-ttatcaaa--gtcttgaattgtttcatttcttttccttttcttca-----cattatc-agGGAGGACATTTCTCTGGCATCTATAGGAAAGTTCAACTAAAGCCACTAAAGTGGATCAAAATGACAAATGACAATGGTGAAGTTGAAGAACAACCTGTTG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT3G01310.1 (Arabidopsis thaliana), 3'ss of exon 16
-atgtgaaaattcaaaagatcctcctcattcctttactacatcgttaagctgccctggatttgttctct----ttttcttgatgtcataaatgtttgctatccagGGGGGACATTTCTCTGGTATTTATCGGAAGGTTCAACTAAAGCCACTAAAGTGGGTTAAAGTTCCAAAAAGTAATGGTGAAGGTGAAGAAGAACGGCCTG
|| || || ||||| || | |||| |||| | || | | || ||||| ||| | | || | |||| ||| ||||| ||||||||||||||||| || ||||||||||||| ||||| || |||||||||||| | |||||||| ||||||| || ||||||||| | || |
gatttg----ttgttaagatatatctgggactttta-tacaggttctgtttggaattggctttttctccgtaatttctctctcatattagacctttgatatgcagGGAGGACATTTCTCTGGTATATACAGGAAGGTTCAACTGAAGCCGCTGAAGTGGGTTAAAATACCAAAAAGCGATGGTGATGGCGAAGAAGAAAGACCAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 16
----------------------------------------------------atgtgaaaattcaaaag-atcctcctcattcctt-tactacatcgttaagctgc--cctggatttgttctctttttcttgatgtcataaatgtttgctatc--cagGGGGGACATTTCTCTGGTATTTATCGGAAGGTTCAACTAAAGCCACTAAAGTGGGTTAAAGTTCCAAAAAGTAATGGTGAAGGTGAAGAAGAACGGCCTG
|| | | | | | | || | | ||||| || | || || | || || ||| |||| ||| |||| | || ||||| || ||||||||||| || || ||||||||||||| ||||| | || |||||||| || ||||||||| |||||||||| ||||| ||||| || |
gttgtgtgccttcaaaatcttattttttctttcttttctctgagctatatccatttcgcagtcccattgtattgtttatagtccttgtaattagctgtacagtaacagttacagcctgcaaactcagtctc-atgttatagatgtgtaaaatttgcagGGTGGGCATTTCTCTGGCATATACAGGAAGGTTCAACTGAAGCCGTTGAAATGGGTTAACGTACCAAAAAGTGATGGTGAAGGCGAAGAGGAACGCCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagctgccctggatttgttctctttttcttgatgtcataaatgtttgctatccagGGGGGACATTTCTCTGGTATTTATCGGAAGGTTCAACTAAAGCCACTAAAGTGGGTTAAAGTTCCAAAAAGTAATGGTGAAGGTGAAGAAGAACGGCCTG
tcttgat putative branch site (score: 4)
ataaatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtgaaaattcaaaagatcctcctcattcctttactacatcgttaagctgccctggatttgttctctttttcttgatgtcataaatgtttgctatccagGGGGGACATTTCTCTGGTATTTATCGGAAGGTTCAACTAAAGCCACTAAAGTGGGTTAAAGTTCCAAAAAGTAATGGTGAAGGTGAAGAAGAACGGCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - gaaaatt
- - - - - -caaaaga
- - - - - - - - - tcctcct
- - - - - - - - - - - - -cattcct
- - - - - - - - - - - - - - - - - - - - - - - -gctgccc