Sequence
atgc intronic sequence ATGC exonic sequence...atccaccctatcctgatacatcatcatgtctgtaagaattttttacctaattcttaatctgattcttggtaaaataataatttgtttgctctccttttagTTGGGGCTTACCCAAATGTGCAGAACCTGTTTGGAGAACTTGGTATTAATGATCGGTTGCAGTGGAAGGAACATTCTATGATATTTGCAAAGCCAAGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g08570.1 (Oryza sativa), 3'ss of exon 5
-atccaccctatcctgatac-atcatcatgtctgtaagaattt-tttacctaattcttaatctgattcttggtaaaataataatttgtttgctctccttttagTTGGGGCTTACCCAAATGTGCAGAACCTGTTTGGAGAACTTGGTATTAATGATCGGTTGCAGTGGAAGGAACATTCTATGATATTTGCAAAGCCAAGCAA
| | | || || | || | | ||| || | | | | ||| || || | | | || | ||| || | | | | ||| |||||| ||||| || || | |||||| ||||||| || ||||||||||||||||||||||| ||||||||||| || ||||||||||| | ||||| |||
ttttccttccatgctcacactgttttgtcgtccacaacagtacatatgtgacattgttcattttgtgcctgt--atgtaaccatatacct-ttttggtttaagTTGGAGCTTATCCCAACATACAGAACTTGTTTGGCGAGCTTGGTATTAATGATCGGTTGCAATGGAAGGAACACTCCATGATATTTGCCATGCCAAACAA
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G00720.1 (Glycine max), 3'ss of exon 4
atccaccctatcctga--tacatcatcatgtctgtaagaattttttaccta-----attcttaatctg-attcttggtaaaataataatttgtttgctctccttttagTTGGGGCTTACCCAAATGTGCAGAACCTGTTTGGAGAACTTGGTATTAATGATCGGTTGCAGTGGAAGGAACATTCTATGATATTTGCAAAGCCAAGCAA
||| | | || || || || || ||| | || || |||| || | | | | | | || || || | |||| ||||||||||||||| |||||||||||||| |||||||||||||| |||||||||||||| || ||||| || ||||||||||| ||||| | ||||| ||
--------tattggaaatcatattatttaatcaatacagatctttcaattatcggaatccttatgttgcagttatctttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTGCAGAACCTTTTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAAGAGCATTCTATGATTTTTGCTATGCCAAATAA
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G36810.1 (Glycine max), 3'ss of exon 4
--atccaccctatcctgatacatcatcatgtctgtaagaattttttacctaattcttaatctg-attcttggtaaaataataatttgtttgctctccttttagTTGGGGCTTACCCAAATGTGCAGAACCTGTTTGGAGAACTTGGTATTAATGATCGGTTGCAGTGGAAGGAACATTCTATGATATTTGCAAAGCCAAGCAA
| || || | | |||| | | | |||| || ||| |||| | || | | | | | | || || || | |||| ||||||||||||||| ||||| |||||| | |||||||||||||| |||||||||||||| || |||||||| ||||||||||| ||||| | ||||| ||
tattggacatcatattatttaatcaatacagatcttttaattattag---aatccttattttgtagttatctttgctttacaactttttccccctccccacagTTGGGGCTTACCCTAATGTACAGAACTTATTTGGAGAACTTGGCATTAATGATCGGTTACAATGGAAGGAGCATTCTATGATTTTTGCTATGCCAAATAA
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 5
-----------------------------------------------------------------atccacc-ctatcctgataca----tcatcatgtctgtaaga--attttttacctaattcttaatctgattcttggtaa--aataataatttgtttgctctcctttt---agTTGGGGCTTACCCAAATGTGCAGAACCTGTTTGGAGAACTTGGTATTAATGATCGGTTGCAGTGGAAGGAACATTCTATGATATTTGCAAAGCCAAGCAA
|| ||| | ||| | || | || | | || || || || || | | | ||| | | | | ||| | | || || | || ||| || ||||| || ||||||||||| | |||||||||||||| || |||||||||||||||||||||||||| || ||||| ||||| | |||||| ||
gtaagtccaaaactcataccctctctgttgctcccccaatatatttgttacatatatcttatcagctctaccatcaatttgaagaaagttgcaaaacactggttaaattatattgtatcttgttttccctgttattacttttcgttactgatactctcttcatgttcttgttggaagTCGGTGCTTATCCGAATGTGCAGAATTTATTTGGAGAACTTGGGATCAATGATCGGTTGCAGTGGAAGGAACACTCCATGATTTTTGCTATGCCAAGTAA
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ10018 (Selaginella moellendorffii), 3'ss of exon 4
atccaccctatcctgatacatcatcatgtctgtaagaattttttacctaattcttaatctgattcttggtaaaataataatttgtttgctctcctttt-agTTGGGGCTTACCCAAATGTGCAGAACCTGTTTGGAGAACTTGGTATTAATGATCGGTTGCAGTGGAAGGAACATTCTATGATATTTGCAAAGCCAAGCAA
| || | || | ||| | |||| |||| | ||| ||| || || || || || ||||| ||| |||||||||||||||| || |||||| || ||||||||||||| || ||||| ||||||| ||| ||
---------------------------------------------gtgagtttctgatacttccgattttaagtttctaatc--cctgcttacgtttccagTCGGAGCATATCCCAACGTGCAAAACTTGTTTGGAGAACTTGGCATCAATGATAGGCTGCAGTGGAAGGAGCACAGCATGATCTTTGCAAGGCCCGATAA
upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ23885 (Selaginella moellendorffii), 3'ss of exon 5
atccaccctatcctgatacatcatcatgtctgtaagaattttttacctaattcttaatctgattcttggtaaaataataatttgtttgctctcctttt-agTTGGGGCTTACCCAAATGTGCAGAACCTGTTTGGAGAACTTGGTATTAATGATCGGTTGCAGTGGAAGGAACATTCTATGATATTTGCAAAGCCAAGCAA
|| ||| || || ||| | |||||| || | |||| |||| | ||| ||| || || || || || ||||| ||| |||||||||| |||||||| ||||| || ||||||||||||| || ||||| ||||||| ||| ||
---------------------------------gtgagttt-----ctgatactt---ccgattct----aagcttctaatc--cctgcttacgtttccagTCGGAGCATATCCCAACGTGCAAAACTTGTTTGGAGAGCTTGGTATCAATGACAGGCTGCAGTGGAAGGAGCACAGCATGATCTTTGCAAGGCCCGATAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctaattcttaatctgattcttggtaaaataataatttgtttgctctccttttagTTGGGGCTTACCCAAATGTGCAGAACCTGTTTGGAGAACTTGGTATTAATGATCGGTTGCAGTGGAAGGAACATTCTATGATATTTGCAAAGCCAAGCAA
tttgtttgctctcctt CT-rich tract
attcttggtaaaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atccaccctatcctgatacatcatcatgtctgtaagaattttttacctaattcttaatctgattcttggtaaaataataatttgtttgctctccttttagTTGGGGCTTACCCAAATGTGCAGAACCTGTTTGGAGAACTTGGTATTAATGATCGGTTGCAGTGGAAGGAACATTCTATGATATTTGCAAAGCCAAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- ccaccct
- - - - - - ctgatac
- - - - - - - - - - - -tcatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgc