Sequence
atgc intronic sequence ATGC exonic sequence...ctttaaatgtgctccttattgttagtttagaattatttttctattaatggagtcctcaaattttaatcatggtctcctggatatgctggtggtaacacagATTCTTAGGTGCCATTAAGCAGTATTTGTGTCTATCATTGTTGAAGAACAGCGCTTCGACTCTTATGATTGTTTTCCAGCTTTCTTGCTCCATTTTCATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G34560.1 (Glycine max), 3'ss of exon 1
--ctttaaatgtgctccttattgttagtttagaattatttttctat--taatggagtcctcaaattttaatcatggtctcctggatatgctggtggtaacacagATTCTTAGGTGCCATTAAGCAGTATTTGTGTCTATCATTGTTGAAGAACAGCGCTTCGACTCTTATGATTGTTTTCCAGCTTTCTTGCTCCATTTTCATT
||| ||| || | | | | ||| || || | || | |||| || | ||||| | || || | |||| ||| || ||||||||||| |||||||| || ||| |||| |||||||||||||||||||| |||||| ||||||| || ||||| || ||||||||||| ||
ttcttcctttgttctatacaccacttgacactatttacttcataattttgccagatgacaaaaatagtactgatggt----taaatttggttgtggatgagcagGTTTTTAGGTGCCATCAAGCAGTACTTATGTTTATCCTTGTTGAAGAACAGCGCTTCAACTCTTTTGATTGTGTTTCAGCTGTCATGCTCCATTTTTATC
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G45340.1 (Glycine max), 3'ss of exon 1
--ctttaaatgtgctccttattgttagtttagaattatttttctattaatggagtcctcaaattt--taatcatggtctcctggatatgctggtggtaacacagATTCTTAGGTGCCATTAAGCAGTATTTGTGTCTATCATTGTTGAAGAACAGCGCTTCGACTCTTATGATTGTTTTCCAGCTTTCTTGCTCCATTTTCATT
||| ||| || | | | | ||| || ||| | || |||| | || | ||||| | || || | |||| ||| || ||||||||||| |||||||| || ||| |||| |||||||||||||| ||||| |||||| ||||||| || ||||| || ||||||||||| ||
ttcttcctttgttctatacaccacttgacactatttacttcataatttttccagatgacaaaaatagtactgatggt----taaatttggttgtggatgagcagGTTTTTAGGTGCCATCAAGCAGTACTTATGTTTATCCTTGTTGAAGAACAGTGCTTCAACTCTTTTGATTGTGTTTCAGCTGTCATGCTCCATTTTTATC
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 1
ctttaaatgtgctccttattgttagtttagaattatttttctattaatggagtcctcaaattttaatcatggtctcctggatatgctggtggtaacacagATTCTTAGGTGCCATTAAGCAGTATTTGTGTCTATCATTGTTGAAGAACAGCGCTTCGACTCTTATGATTGTTTTCCAGCTTTCTTGCTCCATTTTCATT-------------------------------------------------------------------------------
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-------------------------------------------------------------------------------aatttggttgtggatgagcaggtttttaggcgccatcaagcagtacttatgtttatccttgttgaagaacagtgcttcaactcttttgattgtgtttcagCTGTCATGCTCCATTTTCATCAGTCTGGTGTCAAGATTTAGAGCTGGATTGAAGGCAGAAATTGGAGTTTTTTTCCCTATGATTGTTCTCAGGGTCCTAG
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G40480.1 (Glycine max), 3'ss of exon 1
---ctttaaatgtgctccttattgttagtttagaattatttttctattaatggagtcctcaaattttaatcatggtctcctggatatgctggtggtaacacagATTCTTAGGTGCCATTAAGCAGTATTTGTGTCTATCATTGTTGAAGAACAGCGCTTCGACTCTTATGATTGTTTTCCAGCTTTCTTGCTCCATTTTCATT
| || | | || || | | | || || | || | ||| | | ||||||| | | || || ||| |||| | ||| || || |||||||| |||||||| || ||| |||||||||||||||| || || || |||||| || | ||||| ||||| ||||||||||| ||||||
taggcacagctgcacacttttttccttctattttatcatatatccttc--tgggatgataaaattttttttactaatggttgcattgactg-tggtgaagcagGTTTTTGGGTGCCATCAAGCAGTACTTATGTTTATCATTGTTGAAGAATAGTGCCTCAACTCTTTTGGTCGTTTTTCAGCTATCTTGCTCCATCTTCATT
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G01960.1 (Arabidopsis thaliana), 3'ss of exon 1
--------------------------------------------------------------ctttaaatgtgctccttatt--gttagtttagaattatttttctattaatggagtcctcaaattttaatca------tggt----ctcctggatat---------gctggtggtaacacagATTCTTAGGTGCCATTAAGCAGTATTTGTGTCTATCATTGTTGAAGAACAGCGCTTCGACTCTTATGATTGTTTTCCAGCTTTCTTGCTCCATTTTCATT
|| || || || || || | || || || | | | || | | | || | | |||| |||| || ||| | || || | | |||| |||||||| ||||| ||||||||| ||||||| || ||| |||||||||| ||||| | ||||||||| ||||||||||||| ||||| ||||| ||
gtttgttttgtttatcttcttgcattattataacccacgttaggtagattaaactatcatatctctagattcagtcttttttccctcagctttcaacattctgcttgatagttgcttggacagaatgtaatttagcttttggtgtttcttctgaaaatttggcatcaactcattatggaacagGTTCTTAGGCGCCATCAAGCAGTATCTGTGTCTCTCCTTGCTGAAGAACAGTGCTTCAAATCTTATGATCATTTTCCAGCTTTCCTGCTCGATTTTACTT
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------ctttaaatg-tgctccttattgttagt-ttagaattatttttctattaatggagtcctcaaattttaatcatggtctcctggatatgc-tggtggtaacacagATTCTTAGGTGCCATTAAGCAGTATTTGTGTCTATCATTGTTGAAGAACAGCGCTTCGACTCTTATGATTGTTTTCCAGCTTTCTTGCTCCATTTTCATT
||||| | | | ||| || | | | | || | | | | || | | ||||| | | ||| || || | | | | |||| || | || || || || |||| ||||||| | || |||||||||||||| ||||| |||||||||||| | ||||||||||||||||| ||||||||
gtatgttaaatacctctttagctcctttttctttttttgaatataagggtggatccaccgtatcaagaaaaattagattttg-tattcttctgatgaatttccatctctgctgaacagGTTTTCAGCTGATATCAAACAGTTTTTGTGTTTGTCGTTGTTGAAGAACAGTGCTTCTACTCTTATGATTATCTTCCAGCTTTCTTGCTCTATTTTCATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatggagtcctcaaattttaatcatggtctcctggatatgctggtggtaacacagATTCTTAGGTGCCATTAAGCAGTATTTGTGTCTATCATTGTTGAAGAACAGCGCTTCGACTCTTATGATTGTTTTCCAGCTTTCTTGCTCCATTTTCATT
tggtaac putative branch site (score: 2)
tcaaattttaatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttaaatgtgctccttattgttagtttagaattatttttctattaatggagtcctcaaattttaatcatggtctcctggatatgctggtggtaacacagATTCTTAGGTGCCATTAAGCAGTATTTGTGTCTATCATTGTTGAAGAACAGCGCTTCGACTCTTATGATTGTTTTCCAGCTTTCTTGCTCCATTTTCATT
- - - - -tgctcct
- - - - - - - - - - - - - - - - - - - - - - - - - - -cctcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgctg