Sequence
atgc intronic sequence ATGC exonic sequence...ttatatatataaaaaaaagattaaagaaacttttaagttttttttaggaattggtatcaatccaactaatgattctattaaccattgttttgtcctgcagTTTGGGGTGCTTGCAACCATGCATTTCATCTCCATTGCATCTTGAAATGGGTGAATTCGCAGACTCCTCAAGCGCATTGCCCCATGTGCCGTAGGGAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g03770.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G22300.1 (Glycine max), 3'ss of exon 1
------ttatatatat-aaaaaaaagattaaagaaacttttaagttttttttaggaattggtatcaatccaactaatgattctattaaccattgttttgtcctgcagTTTGGGGTGCTTGCAACCATGCATTTCATCTCCATTGCATCTTGAAATGGGTGAATTCGCAGACTCCTCAAGCGCATTGCCCCATGTGCCGTAGGGAATG
| | | || || || | | || || | || | | | | ||| || | |||| | |||| || ||||| || |||||||||||| ||||| || ||||||||||| || || ||| |||||||||||||||| ||||| | ||||||||||||||||||||||||||||| ||
taaccaatgtttggattgaatgcctgactgactaactgattcaattgctatattctgtggatattgatatcagtaattaatcta---acacatgttt----ctacagTTTGGGGTGTATGCAATCACGCATTTCATCTGCACTGTATCCTGAAATGGGTGAATTCTCAGACATCACAAGCGCATTGCCCCATGTGCCGTAGGGAGTG
upper sequence: Vv15s0046g03770.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G28310.2 (Glycine max), 3'ss of exon 2
------ttatatatat-aaaaaaaagattaaagaaacttttaagttttttttaggaattggtatcaatccaactaatgattctattaaccattgttttgtcctgcagTTTGGGGTGCTTGCAACCATGCATTTCATCTCCATTGCATCTTGAAATGGGTGAATTCGCAGACTCCTCAAGCGCATTGCCCCATGTGCCGTAGGGAATG
|| || || || || ||| || | | || | | | ||| || | ||| | |||| | | || | || |||||||||||| ||||| || ||||||||| | || || ||| |||||||||||||||| ||||| | |||||||||||||||||||||||| |||| ||
caagagttgcatggattgaatgcctgactaactaactgatccaattgctatattctgtgaatattgatatcagcaattaatctaaca-------tatttttctacagTTTGGGGTGTATGCAATCACGCATTTCATTTGCACTGTATCCTGAAATGGGTGAATTCTCAGACATCACAAGCGCATTGCCCCATGTGCCGTCGGGAGTG
upper sequence: Vv15s0046g03770.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G34030.1 (Glycine max), 3'ss of exon 2
-ttatatatataaaaaaaagattaaagaaacttttaagttttttttaggaattggtatcaatccaactaatgattctattaaccattgttttgtcctgcagTTTGGGGTGCTTGCAACCATGCATTTCATCTCCATTGCATCTTGAAATGGGTGAATTCGCAGACTCCTCAAGCGCATTGCCCCATGTGCCGTAGGGAATG
| | | | || | |||| | | | | || | ||| | ||| || | | | | | || | || || |||||||||||||| ||||| ||||| |||||| | || || ||| ||||||||||| |||| ||||| | |||||||||||||||||||||||| | |||||
gtctttttcttggtaacaggatttgcttatcaaattgctggattctgtaaatcgttataccagaaatgagtaaaaacttatattcttctatt-tcttgcagTTTGGGGTGTATGCAATCATGCGTTTCATTTGCACTGTATCCTGAAATGGGTGCATTCTCAGACATCACAAGCGCATTGCCCCATGTGCCGTCGTGAATG
upper sequence: Vv15s0046g03770.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G05870.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------------------------------ttatatatataaaaaaaagattaaagaaacttttaagttttttttaggaattggtatcaatccaactaatgattctattaaccattgttttgtcct----gcagTTTGGGGTGCTTGCAACCATGCATTTCATCTCCATTGCATCTTGAAATGGGTGAATTCGCAGACTCCTCAAGCGCATTGCCCCATGTGCCGTAGGGAATG
| | || ||| | |||| | ||| | | | || | || || | | ||||||| | ||||||||||| || |||||||| || |||||||| || || || ||||||||||||||||||||||| ||||| |||||||| |||||| | || |||||
gtaaagttctcttctttcatgtcttcgcttttatatatgttgcttagaacacccactatttctcttgcttacggaaacattgctaaacatttacttatggtaataactcaaaacaaaactgcatgccttagaccttatctgttttggtgttttggtgtttgggcagTTTGGGGAGCCTGCAACCACGCGTTTCATCTTCACTGTATATTGAAATGGGTGAATTCGCAGACGAGCCAAGCTCATTGCCCAATGTGCAGAAGAGAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggaattggtatcaatccaactaatgattctattaaccattgttttgtcctgcagTTTGGGGTGCTTGCAACCATGCATTTCATCTCCATTGCATCTTGAAATGGGTGAATTCGCAGACTCCTCAAGCGCATTGCCCCATGTGCCGTAGGGAATG
tattaac putative branch site (score: 1)
ttttgtcct putative PPT
taatgattctattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatatatataaaaaaaagattaaagaaacttttaagttttttttaggaattggtatcaatccaactaatgattctattaaccattgttttgtcctgcagTTTGGGGTGCTTGCAACCATGCATTTCATCTCCATTGCATCTTGAAATGGGTGAATTCGCAGACTCCTCAAGCGCATTGCCCCATGTGCCGTAGGGAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - aaaaaaa
- - - - - - - - - - - aaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatcca