Sequence
atgc intronic sequence ATGC exonic sequence...aacttagatggccccactgtgttccattatgtagcatcagaagtgcattaggaagaataactcagatggcctcaccatgttctcttgattcaaattgcagGATAACAAAGATGCACGTCATGTTAAAACATATGAGGTGGCTTTGAAGGATAAGGATTTTGTTGAGGGTCCTTGGGCTCAGAACAATCTAGACAATGGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 8
----aacttagatggccccactgtgttccattatg-tagcatcagaagtgcattaggaagaataactcagatggcctcaccatgttctcttgattcaaattgcagGATAACAAAGATGCACGTCATGTTAAAACATATGAGGTGGCTTTGAAGGATAAGGATTTTGTTGAGGGTCCTTGGGCTCAGAACAATCTAGACAATGGGG
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atttacttttgatttattcaaaatatctgctggttctcagatctttatttgaccattgtgagatagtaaaa-gatctgatttaatttgcatgctttac----cagGATAACAAAGATGCAAGACATGTTAAGACATATGAAGTTGCATTGAAGGACAAAGACTTTGTTGAGGGTCCTTGGTCGCAGAACAATTTAGACAATGGTG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G402002_T01 (Zea mays), 3'ss of exon 8
--------------------------aacttagatggccccactgtgttccattatgtagcatca-gaagtgcattaggaagaataactcagatggcctcaccatgttctcttgattcaaattgcagGATAACAAAGATGCACGTCATGTTAAAACATATGAGGTGGCTTTGAAGGATAAGGATTTTGTTGAGGGTCCTTGGGCTCAGAACAATCTAGACAATGGGG
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gtttgtttacacttcttgatgacctcacctttgctagaagagttttgaacaattgaactgcattttgttatgacttgtgatagttgtttttgtttatatgatttgcatcttatgctctacacttcagGATAATAAAGATGTGAGGCATGTTAAGACTTATGAAGTTGCACTGAAGGACAAAGATTTTGTTGAGGGTCCTTGGTCCCAGAATAATGTAGATAATGGTG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 8
aacttagatggccccactgtgttccattatgtagcatcagaagtgcattaggaagaata------actcagatggcctcaccatgttctcttgattcaaattgcagGATAACAAAGATGCACGTCATGTTAAAACATATGAGGTGGCTTTGAAGGATAAGGATTTTGTTGAGGGTCCTTGGGCTCAGAACAATCTAGACAATGGGG
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---ttgcatttcctttatgcaatatatttggttggaaaaatggtgt-ttagcataaacatttttgattttgatggatttgttactatgttttcatc--aatgacagGATAATAAAGATGCTCGTCATGTTAAAACATATGAGGTTGCACTGAAGGATAAAGATTTTGTTGAAGGTCCATGGTCCCAGAACAATCTCGATAATGGGG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G30530.1 (Glycine max), 3'ss of exon 8
aacttagatggccccactgtgttccattatgtagcatcagaagtg-----cattaggaagaataactcagatggcctcaccatgttctcttgattcaaattgcagGATAACAAAGATGCACGTCATGTTAAAACATATGAGGTGGCTTTGAAGGATAAGGATTTTGTTGAGGGTCCTTGGGCTCAGAACAATCTAGACAATGGGG
|| || || || | ||| ||| | | | ||| ||| | || | | | ||||| | || | | || || || |||||||| |||||||| ||||||||||||||||||||||| || |||||||||| |||||| |||| ||||| ||| | ||||||||||| || |||||||
---ttgcatttcctttatgcaatatattttgttggaaaaatggtgtttagcataaacaattttgattttgatggatttgttattatgttttcatc--gatgacagGATAATAAAGATGCTCGTCATGTTAAAACATATGAGGTTGCACTGAAGGATAAAGATTTTCTTGAAGGTCCATGGTCCCAGAACAATCTTGATAATGGGG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G05420.1 (Arabidopsis thaliana), 3'ss of exon 8
--------aacttagatggccccactg-tgttccattatgtagcatcagaagtgcattaggaagaataactcagatggcctcaccatgttctcttgattcaaattgcagGATAACAAAGATGCACGTCATGTTAAAACATATGAGGTGGCTTTGAAGGATAAGGATTTTGTTGAGGGTCCTTGGGCTCAGAACAATCTAGACAATGGGG
||||| | | || || | | | ||| | | ||| |||| | || | | | || || || | ||| || || |||| ||||||||||| |||||||| ||||||||||| || || | || |||||||||||||| |||||||| ||| ||||||||| ||| |||||||| |
ttttttttaactttataatctatattgatgatgtagtctgttgtacgaga--tgcaatctagaggtttctccggtgggactaactaa---tcattggttg----tgtagGACAACAAAGATGCTCGTCATGTCAAAACATATGAAGTCTCTCTTAAAGATAAGGATTTTGTCGAGGGTCCATGGTCTCAGAACAGTCTCGACAATGGTG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 3'ss of exon 8
aacttagatggccccactgtgttccattatg--tagcatcagaagtgcattaggaagaataac-tcagatggcctcaccatgttctcttgattcaaattgcagGATAACAAAGATGCACGTCATGTTAAAACATATGAGGTGGCTTTGAAGGATAAGGATTTTGTTGAGGGTCCTTGGGCTCAGAACAATCTAGACAATGGGG
| || | | || || || | | | | |||| | | || | | | ||| || | | || || || ||||| ||||||||||| |||||||| ||||||||||| || || | ||||||||| | ||||| || ||||| ||| | ||||||||||| |||||||| |
ctgctgtattttttaaataaattgtatcttggtttactttgctaatgcaatgtgctcaaggatgtttgctgggtgaactaa---ttaatgcttgggtttacagGACAACAAAGATGCTCGTCATGTCAAAACATATGAAGTTTCTCTAAAGGATAAGAACTTTGTCGAAGGTCCATGGTCACAGAACAATCTCGACAATGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattaggaagaataactcagatggcctcaccatgttctcttgattcaaattgcagGATAACAAAGATGCACGTCATGTTAAAACATATGAGGTGGCTTTGAAGGATAAGGATTTTGTTGAGGGTCCTTGGGCTCAGAACAATCTAGACAATGGGG
attcaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacttagatggccccactgtgttccattatgtagcatcagaagtgcattaggaagaataactcagatggcctcaccatgttctcttgattcaaattgcagGATAACAAAGATGCACGTCATGTTAAAACATATGAGGTGGCTTTGAAGGATAAGGATTTTGTTGAGGGTCCTTGGGCTCAGAACAATCTAGACAATGGGG
- - tagatgg
- - - - - -ccccact
- - - - - - - - - - -ttccatt
- - - - - - - - - - - - - - -tgtagca
- - - - - - - - - - - - - - - - - - - - - gtgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - ggaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cagatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcacca