Sequence
atgc intronic sequence ATGC exonic sequence...tgatttcagctatttataagttgagggtgtccttgtaacataatcatgcggtttggtctctgattgatgtctaatttgttgccatgctcgcttacttcagCTGGCCAATATGTGATTGCTTGGTTGCCTTCTATTCATCTGGCTACCCTCTTGAAAAGGCTGAAGCTTATGCTGCTTTGAGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 3
------------------------------------------------------tgatttcagctat-ttataagttgagggtgtccttgtaacataa---tcatgcg-gtttggtctctgattgatgtctaatttgttgcc---atgctcgcttacttcagCTGGCCAATATGTGATTGCTTGGTTGCCTTCTATTCATCTGGCTACCCTCTTGAAAAGGCTGAAGCTTATGCTGCTTTGAGAAA
| || | | | || | || | | || | ||||| | ||| | |||| || | | |||| | | | ||| | | ||| ||||||| ||| ||||||||| ||||||||||||||||||| | ||||||| |||| ||||| |||||||||||||| |||
gtatgtaatgacaactcaggttattgataacttaatcattgttcttttcaagtataggtttatccacactacttctgtagtatttttttatggcataaatgtagtgcatgcttggctgtaagtttacgagtaatgtctcacttatctgcattttatgtccagTTGGCCAAAATGCGATTGCTTGATTGCCTTCTATTCATCTGGTTTCCCTCTTAAAAAAGCTGAGGCTTATGCTGCTTTACGAAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 1
tgatttcagctatttataagttgagggtgtcct-tgtaacataatcatgcggtttggtctctgattgatgtctaatttgttgcc--atgctcgcttacttcagCTGGCCAATATGTGATTGCTTGGTTGCCTTCTATTCATCTGGCTACCCTCTTGAAAAGGCTGAAGCTTATGCTGCTTTGAGAAA
|| | | |||||| | || || | | | | | ||| | | | | | || || || | ||| ||||||||||||||||||||||| ||| |||| |||||||| || || || || ||||||||||||| || |||||| |||| |||||
---cacttgcaacatttaagttatagctgaactattttatttttgttcaccttttagatgttaagagtcatgctgttaatttttaaatattgtgttatttcagCTGGCCAATATGTGATTGTTTGATTGCTTTCTATTCCTCGGGATATCCCCTTGAAAAGGCTGCGGCATATGCTACTTTAAGAAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 3
tgatttcagctatttataagttgagggtgtccttgtaacataatcatgcggtttg--gtctctgattgatgtctaatt--tgttgccatgctcgcttacttcagCTGGCCAATATGTGATTGCTTGGTTGCCTTCTATTCATCTGGCTACCCTCTTGAAAAGGCTGAAGCTTATGCTGCTTTGAGAAA
| | | | |||||| || || | || | | | ||| | | | | | || |||| | | ||| |||||||||||| ||||||| || ||| |||| |||||||| || || || || |||||||||||||| || ||||||||||| |||||
---acgctacaacatttaagttatacctgaact-attttatttttgttcaccttgtagatgttaagagtcatgctgttaatgtttaaacattgtgttatttcagCTGGCCAGTATGTGACTGTTTGATTGCTTTCTATTCCTCGGGATATCCCCTTGAAAAGGCTGAGGCATATGCTGCTTTAAGAAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 1
tgatttcagctatttataagttgagggtgtccttgtaacataatcatgcggttt-ggtctctgattgatgtc-taatttgttgccatgctcgcttacttcagCTGGCCAATATGTGATTGCTTGGTTGCCTTCTATTCATCTGGCTACCCTCTTGAAAAGGCTGAAGCTTATGCTGCTTTGAGAAA
|| | | |||| | ||| |||||| || || | | ||| | | | || || | || | || | | || |||||||||||| | || ||||| ||| |||| || |||| ||||| || || || |||||||||||||| ||||||||||| |||||
-gagactcgtaagttatg-gctgaaatattccttgcttcaacattttaggtttttagagttccactgttggcatactaaatttatagattatgttgtttcagCTGGCCAGTGTGCGATTGTTTGATTGCTTTTCATTCCTCTGGATATCCCCTGGAAAAGGCTGAAGCATATGCTGCTTTAAGAAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G01310.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------------------------------------tgatttcagctatttataagttgagg-gtgtccttgtaacataatcatgcggtttggtctctg-attgatgtctaatttgttgccatgctcgcttac---ttcagCTGGCCAATATGTGATTGCTTGGTTGCCTTCTATTCATCTGGCTACCCTCTTGAAAAGGCTGAAGCTTATGCTGCTTTGAGAAA
| | | | || | || || | | ||| || || | | | || || || | || ||| || | |||| ||||| ||||| || |||||||||||| |||| || |||| ||||| || |||||||| |||||| | || ||||||||||| |||||
gtattctgtaccaaatagagctctcttttggctttaactcatgttatgaaagattcgttgttagtgtatttagacaaactgtagctgaatatatatcaagtacaaagtatatactggaatcaaaact-ttaccagact-gtttactctttcagTTGGCCCATTTGTGATTGCTTGATTGCTTTTCATTCCTCTGGATATCCTCTTGAGAAGGCTCAGGCATATGCTGCTTTAAGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcggtttggtctctgattgatgtctaatttgttgccatgctcgcttacttcagCTGGCCAATATGTGATTGCTTGGTTGCCTTCTATTCATCTGGCTACCCTCTTGAAAAGGCTGAAGCTTATGCTGCTTTGAGAAA
cgcttac putative branch site (score: 3)
cttacttc CT-rich tract
taatttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatttcagctatttataagttgagggtgtccttgtaacataatcatgcggtttggtctctgattgatgtctaatttgttgccatgctcgcttacttcagCTGGCCAATATGTGATTGCTTGGTTGCCTTCTATTCATCTGGCTACCCTCTTGAAAAGGCTGAAGCTTATGCTGCTTTGAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - ttcagct
- - - - - - - - - - - gagggtg
- - - - - - - - - - - - - - - - - - aacataa
- - - - - - - - - - - - - - - - - - - - - - catgcgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgct