Sequence
atgc intronic sequence ATGC exonic sequence...gtgtttccttgtgctgtattgttgactgttttcactacttcatgagattaacattggaaattgaaaaaatacacgaactaaattttgtcggtcccatcagAAAACCATCAAACAAGAGGTAGTGGATTGGCTCCTTGGCCAGCTCGATTAACTGCTCCTCCTCCTCGTCTAGCTGATTTTGGCTATACCAGTGACATGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os10g33720.1 (Oryza sativa), 3'ss of exon 5
--gtgtttccttgtgctgtattgttgactgttttcactacttcatgagattaacattggaaattgaa--aaaatacacgaactaaattttgtcggtcccatcagAAAACCATCAAACAAGAGGTAGTGGATTGGCTCCTTGGCCAGCTCGATTAACTGCTCCTCCTCCTCGTCTAGCTGATTTTGGCTATACCAGTGACATGTT
| |||| || | || | | || | | || | | || ||| | | || |||||| | | | |||| | ||| | ||||||| || || | || | |||| ||||||||||||| ||||||||||| |||| ||||| ||||| |||||||| || ||||| ||
tgttctttctttatcatggttaataaacagggctaacagcaagccacaa--aatattttaggtcaaagcaaaataaccaagatttttttttttggttc--tcagAAATGCACAAAGATGGGGGAACTGGACTGGCTCCTTGGCCTGCTCGATTAACAACTCCACCTCCCCGTCTTGCTGATTTGTATGTCACTGCTGACACATT
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G18630.1 (Glycine max), 3'ss of exon 4
-gtg-tttccttgtgctgtattgttgactgttttcactacttcatgagattaacattggaaattgaaaaaatacacgaactaaattttgtcggtcccatcagAAAACCATCAAACAAGAGGTAGTGGATTGGCTCCTTGGCCAGCTCGATTAACTGCTCCTCCTCCTCGTCTAGCTGATTTTGGCTATACCAGTGACATGTT
|| |||| || | | || || | | | || ||| ||| | ||| ||| ||||||| | || ||| || |||| |||| | || | ||| ||| || ||||||||||||||||||||||| ||| |||| ||||||||||| ||||| ||| |||| | | ||| |||||
catgatttcattccgttccatca--gaattctggtattatttcttgactcttctattagaagttgaaaagtcaataaccatatattctgctggtctatgcagAGATGCACAGAGCAAAAGGAGCTGATTTGGCTCCTTGGCCAGCTCGATTGACTACTCCACCTCCTCGTCTGGCTGACTTTAACTATTCAACTGAAATGTT
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G04370.1 (Glycine max), 3'ss of exon 4
gtg-tttccttgtgctgtattgttgactgttttcactacttcatgagattaacattggaaattgaaaaaatacacgaactaaattttgtcggtcccatcagAAAACCATCAAACAAGAGGTAGTGGATTGGCTCCTTGGCCAGCTCGATTAACTGCTCCTCCTCCTCGTCTAGCTGATTTTGGCTATACCAGTGACATGTT
|| |||| || | || | | | | | || ||| ||| | ||| ||| ||||||| || || ||| | |||| |||| | || | ||| ||| ||| ||||||||||||||||||||||| || |||| ||||||||||| ||||| ||| |||| ||| ||| |||||
atgatttcattccattccatcat-aattcctggtattatttcttgactcttctattagaagttgaaaagttaataaccatatattcttctggtctatgcagAGATGCACAGAGCAAAAGGAGCTGGTTTGGCTCCTTGGCCAGCTCGATTGACCACTCCACCTCCTCGTCTTGCTGACTTTAACTATTCCACTGAAATGTT
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G32130.2 (Glycine max), 3'ss of exon 4
gtgtttccttgtgctgtattgttgactgttttcactacttcatgagattaacattggaaattgaaaaaatacacgaac-taaattttgtcggtcccatcagAAAACCATCAAACAAGAGGTAGTGGATTGGCTCCTTGGCCAGCTCGATTAACTGCTCCTCCTCCTCGTCTAGCTGATTTTGGCTATACCAGTGACATGTT
|| | ||| ||| || | || ||||| || | || || | | | | | || ||| || | || |||||| || || ||| ||| ||||| |||||||||||||| |||||||| ||| |||| ||||||||||| || || || |||| | | ||| |||||
atgacgatac-tactgcattttttgcatgttgcactagcaattgctgtattagttaacaactcttgtatgtaataatcatatattctgctgttctgtgcagAAATGCACAAAGCAAAAGGAAGTGGTTTGGCTCCTTGGCCTGCTCGATTGACTACTCCACCTCCTCGTCTGGCAGAAATTCACTATTCTACTGAAATGTT
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G34890.2 (Glycine max), 3'ss of exon 5
---------------gtgtttccttgtgctgtattgttgactgttttcactacttcatgagattaacattggaaattgaaaaaatacacgaactaaattttgtcggtcccatcagAAAACCATCAAACAAGAGGTAGTGGATTGGCTCCTTGGCCAGCTCGATTAACTGCTCCTCCTCCTCGTCTAGCTGATTTTGGCTATACCAGTGACATGTT
| ||| | || || | | | | || | | | || || ||||| ||| || || || | | ||| || | || |||||| || || ||| ||| |||| |||||||||||||| |||||||| ||| |||| ||||||||||| || || || |||| | | ||| |||||
tatgacaatactacagcattttcacatgttgcactatcaattgctgt-attagtt-----aattaatcttgtaagc--aataactgtat-------attctgctgttctatgcagAAATGCACAAAGCAAAAGGAAGTGATTTGGCTCCTTGGCCTGCTCGATTGACTACTCCACCTCCTCGTCTGGCAGAAATTCACTATTCTACTGAAATGTT
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G23300.1 (Arabidopsis thaliana), 3'ss of exon 5
-------------gtgtttccttgtgctgtattgttgactgttttcacta-cttcatgagatta--acattggaaatt---gaaaaaatacacgaactaaattttgt-----cggtcccatcagAAAACCATCAAACAAGAGGTAGTGGATTGGCTCCTTGGCCAGCTCGATTAACTGCTCCTCCTCCTCGTCTAGCTGATTTTGGCTATACCAGTGACATGTT
| | ||| | | | || | | ||| || ||||| || || | |||| | || ||| ||||| | |||||||| | | || | | || ||| |||| |||| | || |||||||||||||| ||||||||||||||||| ||||||||||||| |||||||| ||||||||| ||| |||||| ||
gtgagttttcattattctatcttcttttcactaacagagtttcgtcattaacttcacaagcttgtgatattgcatatctgagaacaaatatgctcactaaattatttttcaacgtttctattagATGACCACAAAACCAAGGGAAGTGGATTGGCTCCATGGCCAGCTCGATTAACCTCTCCTCCTCCTCGGCTAGCTGACTTTGGCTATTCCACTGACATTTT
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G14360.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgtttccttgtgctgtattgttgactgttttcactacttcatgagattaacattggaaattgaaaaaatacacgaactaaattttgtcggtcccatcagAAAACCATCAAACAAGAGGTAGTGGATTGGCTCCTTGGCCAGCTCGATTAACTGCTCCTCCTCCTCGTCTAGCTGATTTTGGCTATACCAGTGACATGTT
| ||||||| | | || || | | | | ||||| ||||| ||| | ||| |||| |||| | || |||||||| ||||| ||||||||||| ||||| |||||||||| | || ||||||||||| ||| | | | ||||||
-----------------------gtaagttttcaagcttcttctcgcttttcaataacagcgtatatttcctctgaactcttttttgg-ggttgtcttagATGACCACAAAACCAAGGGAAGTGGATTAGCTCCATGGCCAGCTCGGTTAACCTCTCCTCCTCCCAGACTTGCTGATTTTGGATATTCAACGGGCATGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattaacattggaaattgaaaaaatacacgaactaaattttgtcggtcccatcagAAAACCATCAAACAAGAGGTAGTGGATTGGCTCCTTGGCCAGCTCGATTAACTGCTCCTCCTCCTCGTCTAGCTGATTTTGGCTATACCAGTGACATGTT
aactaaa putative branch site (score: 2)
tcccatc putative PPT
aaattgaaaaaataca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtttccttgtgctgtattgttgactgttttcactacttcatgagattaacattggaaattgaaaaaatacacgaactaaattttgtcggtcccatcagAAAACCATCAAACAAGAGGTAGTGGATTGGCTCCTTGGCCAGCTCGATTAACTGCTCCTCCTCCTCGTCTAGCTGATTTTGGCTATACCAGTGACATGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - -cttgtgc
- - - - - - - - - - - tgactgt
- - - - - - - - - - - - - - - - - - - - catgaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aactaaa