Sequence
atgc intronic sequence ATGC exonic sequence...catcattgcatatcaaaaacatgatttatgagttaacaactatgccttcagtgtttttgttctgttaaaacagtttctcattttatgttttttattgcagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 3'ss of exon 11
catcattgcatatcaaaaa-catgatttatgagttaacaactatg-ccttcagtgtttttgttctgttaaaacagtttctcattttatgttttttattgcagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG
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--acgtcatatattaaaaaacggaggtagtagttttgtagccataacatgctttcaatttattttctttataaatcatttgaatatttgattgacctttcagGGGACCCAGTTATGGTTATCGAGGCAGAGTGATGCTTGCTTTTGAAGAAAATGGGTCTTCCAAAATTGGAGTTCGATTTGACAAGCAGATCCCTGATGGT
upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G052403_T01 (Zea mays), 3'ss of exon 2
-----catcattgcatatcaaaaacatgatttatgagttaaca-actatgcc--ttcagtgtttttgttctgttaaaacagtttctcattttatgttttttattgcagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG
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aaatcagatattctttccccatatcacattttttctagcaccatattatattagtccaatacatatatttgtttatataaattgcttgcttgatctc--------cagGGGACCAAGTTATGGTTATCGAGGCAGAGTGATGCTTGCTTTTGAAGATAATGGATCCTCAAAAATTGGAGTCCGATTTGACAAGCAGATCCCTGATGGT
upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G126453_T01 (Zea mays), 3'ss of exon 6
------catcattgcatatcaaaaacatgatttatgagttaacaactatgcc--ttcagtgtttttgttctgttaaaacagtttctcattttatgttttttattgcagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG
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atgatacattctttcttctgatgacattacttttttctccagcaaccattttaattcaatacatgcattcatttttataaattgtttgattgatcttt--------agGGGACCAAGTTATGGTTATCGAGGTAGAGTGATGCTTGCTTTTGAAGATAATGGATCCTCAAAAATTGGAGTCCGGTTTGACAAGCAGATCCCTGATGGT
upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G02400.1 (Glycine max), 3'ss of exon 10
catcattgcatatcaaaaacatgatttatgagttaacaactatgccttcagtgtttt--tgttctgttaaaacagtttctcattttatgttttttattg--cagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG
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---tattttatcctcctgctaattttttatatctaatcctttagtttatatttttttcttattctggaaaattaagattttattct-tcttctatattggtcagGGGACCTAGCTATGGCTCCCGAGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G17410.1 (Glycine max), 3'ss of exon 6
catcattgcatatcaaaaacatgatttatgagttaacaactatgccttcagtgtttt--tgttctgttaaaacagtttctcattttatgttttttattg--cagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG
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-attttatcctcctgctaattt--tttgatatctaatcatttagtttatatttttttcttattctggaaaattaagatattattct-tcttctatattgatcagGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTGCTTGCTTTTGAAGATAATAGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA02G17400.1 (Glycine max), 3'ss of exon 7
--catcattgcatatcaaaaacatgatttatgagttaacaactatgccttcagtgtttttgttctgttaaaacagtttctcattttatgttttttattgcagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG
| || | | | | ||| || | || | | | || || | | ||||| ||||| ||| | || | | || | | | | ||||||||||||| | |||| | || |||||||| || || ||||||||||| || || || || |||||||||||||| ||||||| ||| ||||| || ||
ttcttctgttctttatgataactcttctttctatttcaaatccattagtttaattttttt-ttctgg-gaaatggattttattcttcttctatattgtgcagGGGACCAAGTTATGGCTCCCGGGGCAAAGTTCTCCTAGCTTTTGAAGATAACGGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGA
upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G02410.1 (Glycine max), 3'ss of exon 7
catcattgcatatcaaaaacatgatttatgagttaacaactatgccttcagtgtttttgttctgtta-aaacagtttctcattttatgttttttattgcagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG
|| | | | | |||| || | || | | | || || | | |||| || | | | ||| | || | | || | | | | ||||||||||||| |||| | || |||||||| || || ||||||||||| || || || || |||||||||||||| ||||||| ||| ||||| || ||
-ttctgttctttctgataacacttctttctatttcaaatccattagtttacttttttgtttttctgagaaatggattttattgttcttctatattgtgcagGGGACCAAGCTATGGCTCCCGGGGCAAAGTTCTCCTAGCTTTTGAAGATAACGGGTCTTCAAAAATTGGGGTTAGGTTTGATAAATCAATTCCAGATGGC
upper sequence: Vv07s0005g00200.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G02890.1 (Arabidopsis thaliana), 3'ss of exon 10
-catcattgcatatcaaaaacatgatttatgagttaacaactatgccttcagtgttt-ttgtt-ctgttaaaaca------gtttctcattttatgttttttattgcagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG
|| || | | | | | | | | | | | | | ||| ||||| ||| ||||| ||||| ||| | || || | |||||||| | | |||| || ||| |||||||| ||||| ||||||| |||||||| || ||||| ||||||||||||||||||||||| || || ||
gtattgttttttgtttttattctcttcttttgttcgaggggttttcatctgatgtagattgttgttgtcaaaactcaatttatttcttttttcgtattattctgtctagGGGACCGGCAACAGGTTTTCAAGGAAAAGTACTCCTTGCGTTTGAAGGCAATGGATCTTCAAAAATCGGGGTTAGATTTGATAGATCGATACCAGATGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttcagtgtttttgttctgttaaaacagtttctcattttatgttttttattgcagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG
ttttttatt CT-rich tract
tttctcattttatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catcattgcatatcaaaaacatgatttatgagttaacaactatgccttcagtgtttttgttctgttaaaacagtttctcattttatgttttttattgcagGGGACCAACTAATGGTTATCGAGGCAAAGTACTACTTGCTTTTGAAGAAAATGGATCCTCCAAAATTGGGGTTAGATTTGATAGATCGATTCCGGAAGGG
- -cattgca
- - - - - - - aaaaaca
- - - - - - - - - - - - - - - - - - - -ctatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaacag