Sequence
atgc intronic sequence ATGC exonic sequence...ggggaatcccctgatcccctggtatgaactgcataaagggatgggggtgattgagggtccatcaagatgagattaaaagtttatttctgcactgttgcagGGGGAAAGTAGCTGAAGGTATTGATTTTGATCGACATTATGGAAGATTAGTGATCATGTTTGGTGTTCCTTTCCAATACACATTAAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os05g05260.1 (Oryza sativa), 3'ss of exon 6
ggggaatcccctgatcccctggtatgaactgcataaagggatgggggtgattg----agggt-ccatcaagatgagattaaaagtttatttctgcactgt----tgcagGGGGAAAGTAGCTGAAGGTATTGATTTTGATCGACATTATGGAAGATTAGTGATCATGTTTGGTGTTCCTTTCCAATACACATTAAGCAG
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--------tcaagtgttattattataaa-tgtttaagtggtcttgactcatggctacataatatgatggacatatgactcatagctaactaccactatgctcaatccagGGGCAAAGTAGCCGAAGGTATTGATTTTGATCGACACTATGGCAGACTTGTGATCATGTTTGGTGTTCCTTTCCAGTACACACTCAGCAG
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G097605_T02 (Zea mays), 3'ss of exon 1
-------------------------------------------------------ggggaatcccctgatcccctggtatga---actgcataa-agggatgggggtgattgagggtccatcaagatgagattaaaagtttatttctgc---actgttgcagGGGGAAAGTAGCTGAAGGTATTGATTTTGATCGACATTATGGAAGATTAGTGATCATGTTTGGTGTTCCTTTCCAATACACATTAAGCAG
| | | | | | | ||| ||| | | | ||| || ||| | ||| | || | ||| | | ||| |||||||| ||||| ||||||||||||||||||||||| || ||||| |||||||| ||||||||||||||||||||||| |||||||| || |
gttggtccaccttattattttgcgttctgaaagcaaccttccaaaatttatatttgatcatgtcaaataatcagtaatgtgactgactatgtgatatagataaaaatg-ttgtcgccattgtaagctatagtttcacttttgctaacacttaactaatgcagGGGCAAAGTTGCTGAAGGTATTGATTTTGATCGGCACTATGGCAGATTAGTTATCATGTTTGGTGTTCCTTTCCAGTACACATTGAGTCG
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G09080.1 (Glycine max), 3'ss of exon 7
ggggaatcccctgatcccctggtatgaactgcataaagggatgggggtgattgagg--------gtccatcaagatga---gattaaaagtttatttctgcactgttgcagGGGGAAAGTAGCTGAAGGTATTGATTTTGATCGACATTATGGAAGATTAGTGATCATGTTTGGTGTTCCTTTCCAATACACATTAAGCAG
|| || || | ||| || | | | || || || || || || ||| | | || ||| ||| ||| | ||||||||| || || ||||||||||| |||||||||||||||||||| || |||| |||||||||||||||||||| ||||||||||||||||
--------ttctcatttactaat-tgagctact--agttgctgcggttgcttactactttacctatctattaagttcatctgagcctaagaatatgtctacttgtttgcagGGGAAAGGTTGCTGAAGGTATAGATTTTGATCGACATTATGGCCGACTAGTAATCATGTTTGGTGTTCCTTTTCAATACACATTAAGCAA
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G28290.1 (Glycine max), 3'ss of exon 7
ggggaatcccctgatcccctggtatgaactgcataaagggatgggggtgattgagggtccatcaagatga---gattaaaagtttatttctgcactgttgcagGGGGAAAGTAGCTGAAGGTATTGATTTTGATCGACATTATGGAAGATTAGTGATCATGTTTGGTGTTCCTTTCCAATACACATTAAGCAG
| | | | | | | ||| || | | || || || ||| | | ||| ||| ||| ||| | ||||||||| || || ||||||||||| |||||||||||||||||||| || |||| |||||||||||||||||||| ||||||||||||||||
--aggttgattttttatacaacaactagttgctgtaattgcttattacc-ttacctatctattaagttcatccgatcctaagaatatatctacttgtttgcagGGGAAAGGTTGCTGAAGGTATAGATTTTGATCGACATTATGGCCGACTAGTAATCATGTTTGGTGTTCCTTTTCAATACACATTAAGCAA
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G03190.2 (Arabidopsis thaliana), 3'ss of exon 7
------------------------------------------------------------------------------------------ggggaatcccctgatcccctggtatgaactgcataa-agggatgggggtgattgagggtccatcaagatgagattaaaa--gtttatttctgcact---gttgcagGGGGAAAGTAGCTGAAGGTATTGATTTTGATCGACATTATGGAAGATTAGTGATCATGTTTGGTGTTCCTTTCCAATACACATTAAGCAG
|| | || || ||| | | || ||| | || | | || | || | | ||| | | || || | | |||||||||||||| ||||||||||| ||||||||||| |||||||||||| | || | |||| || || || ||||| || ||||||||||
gtaaaatttttatttttgaatggtagatggtttgggaattcattgcaatgcgtctttggttctgcttctttgtttctgtattataatactggaattgtctcttctctcctattcttggttggttaacaaatattaaagaggtttcacttttgagaaatttcaaagaaagtgatcaaattttgtatttgaactgcagGGGGAAAGTTGCTGAAGGTATCGATTTTGATCGTCATTATGGAAGACTGGTTGTAATGTACGGAGTACCATTCCAGTATACATTAAGCAA
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ08988 (Selaginella moellendorffii), 3'ss of exon 6
ggggaatcccctgatcccctggtatgaactgcataaagggatgggggtgattgagggtccatcaagatgagattaaaagtttatttctgcactgttgcagGGGGAAAGTAGCTGAAGGTATTGATTTTGATCGACATTATGGAAGATTAGTGATCATGTTTGGTGTTCCTTTCCAATACACATTAAGCAG
| || | || || || | | || ||||| | |||| || ||||||||||| || ||||||||||| || |||||||||||||| | | || || |||||||| || || || || || ||| | ||||
--------------------------------------gtttgttagcttttctggcaccttttacttgg---taaaaacattgttcta------tgtagGGGGAAAGTTGCAGAAGGTATTGACTTCGATCGACATTATGGTCGCCTTGTCATAATGTTTGGGGTGCCGTTTCAGTATACACTGAGCAA
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ30044 (Selaginella moellendorffii), 3'ss of exon 6
ggggaatcccctgatcccctggtatgaactgcataaagggatgggggtgattgagggtccatcaagatgagattaaaagtttatttctgcactgttgcagGGGGAAAGTAGCTGAAGGTATTGATTTTGATCGACATTATGGAAGATTAGTGATCATGTTTGGTGTTCCTTTCCAATACACATTAAGCAG
| || | || || | | | || |||| | |||| || ||||||||||| || ||||||||||| || |||||||||||||| | | || || |||||||| || || || || || ||| | ||||
--------------------------------------gtttgttagcttttctggcatcttttacttgg---caaaaacattgttcta------tgtagGGGGAAAGTTGCAGAAGGTATTGACTTCGATCGACATTATGGTCGCCTTGTCATAATGTTTGGGGTGCCGTTTCAGTATACACTGAGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtgattgagggtccatcaagatgagattaaaagtttatttctgcactgttgcagGGGGAAAGTAGCTGAAGGTATTGATTTTGATCGACATTATGGAAGATTAGTGATCATGTTTGGTGTTCCTTTCCAATACACATTAAGCAG
agattaaaagtttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggggaatcccctgatcccctggtatgaactgcataaagggatgggggtgattgagggtccatcaagatgagattaaaagtttatttctgcactgttgcagGGGGAAAGTAGCTGAAGGTATTGATTTTGATCGACATTATGGAAGATTAGTGATCATGTTTGGTGTTCCTTTCCAATACACATTAAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - aatcccc
- - - - - -tgatccc
- - - - - - - - - - ggtatga
- - - - - - - - - - - - - - ctgcata
- - - - - - - - - - - - - - - - - - - - - gggggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -attaaaa