Sequence
atgc intronic sequence ATGC exonic sequence...gcaacacatatatgtatgagtggcaatatttttctaattatacagatttaaattcacagttctgtgataacacaagcaggtatttctttgttgtttacagGGTGTGGTGAAAAATATTATACCGGCCATTGCATCCACAAATGCAATTATTTCAGCTGCATGTGCACTGGAAACCTTGAAGATTGTATCAGGATGCAGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g02820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g16540.1 (Oryza sativa), 3'ss of exon 6
gcaacacatatatgtatgagtggcaatatttttctaattatacagatttaaattcacagttctgtgata-acacaagcaggtatttctttgttgtttacagGGTGTGGTGAAAAATATTATACCGGCCATTGCATCCACAAATGCAATTATTTCAGCTGCATGTGCACTGGAAACCTTGAAGATTGTATCAGGATGCAGCA
| ||| | || | | ||| || || | | | | |||| | ||||| | | | || | | || | ||||||||||| || || ||||| || || |||||||| || |||||||||||| |||| ||||||||||| ||||| | | ||| || | || || |||||||
-cttaccattagttgatatgccgtgtaattattggaaagtcatggttgttaatttgatgggatgtgacatatgtaccactgtgtattttcatgaattacagGGTGTTGTCAAGAATATCATCCCAGCCATTGCTTCAACAAATGCAATTGTTTCTGCTGCATGTGCGTTGGAAGCTCTTAAGCTTATCTCTGGGTGCAGCA
upper sequence: Vv05s0020g02820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G007915_T02 (Zea mays), 3'ss of exon 6
gcaacacatatatgtatgagtggca-atatttttctaattatacagatttaaattcacagttctgtgata-acacaagca-ggtatttctttgttgtttacagGGTGTGGTGAAAAATATTATACCGGCCATTGCATCCACAAATGCAATTATTTCAGCTGCATGTGCACTGGAAACCTTGAAGATTGTATCAGGATGCAGCA
|| | ||| | ||| ||| |||||| || | || | ||||| || | |||| | | | | | | ||||| || |||||||| || |||||||| || || ||||||||||| || ||||||||||| || ||||| |||||| ||||| |||| ||| || | || || |||||||
tcagcttttatgttctaatgtgatgcatagctttctacttgaaaagtct---attcataggacagtgacatatgtagtcctgactactttttgtgaatttcagGGTGTTGTCAAAAATATAATCCCAGCCATTGCATCAACGAATGCAATTATATCGGCTGCTTGTGCATTGGAAGCCTTAAAGCTTATTTCTGGGTGCAGCA
upper sequence: Vv05s0020g02820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G38770.1 (Glycine max), 3'ss of exon 6
---gcaacacatatatgtatgagtggcaatatttttc-taattatacagatttaaattcacagtt-ctgtgataacacaagcaggtatttctttgttgtttacagGGTGTGGTGAAAAATATTATACCGGCCATTGCATCCACAAATGCAATTATTTCAGCTGCATGTGCACTGGAAACCTTGAAGATTGTATCAGGATGCAGCA
|| | | | | | | | |||| | | | | | | ||| || || | | ||| | | || || ||| | | ||||||| ||||| || || ||||| || || || || |||||||||||||| ||||| ||||||||||| ||||| || ||||||| | ||| |||||||
gaattgtttgatgtttatctcatttattgtgttttcccttgtgagggtcaactgtattttcatttattcctttttcactaaaaattaattgttt-----taatagGGTGTCGTGAAGAACATCATACCAGCTATAGCTTCAACAAATGCAATTATATCAGCAGCATGTGCACTAGAAACATTAAAGATTGCAACAGAGTGCAGCA
upper sequence: Vv05s0020g02820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G01940.2 (Glycine max), 3'ss of exon 6
-------gcaacacatatatgtatgagtggcaatatttttctaattatacagatttaaattcacagttctgtgataacacaagcaggtatttctttgttgtttacagGGTGTGGTGAAAAATATTATACCGGCCATTGCATCCACAAATGCAATTATTTCAGCTGCATGTGCACTGGAAACCTTGAAGATTGTATCAGGATGCAGCA
| ||| | | | || || || | | | || | || ||| || | | ||| | | || || ||| | ||||||| ||||| || || ||||| || || || || || ||||||||||| || |||||||||||||| ||||| || ||||||| | ||| |||||||
gaattgtttgatgtttatcttgtttattgtgtattcccttgtgagggt-caactgtattttcgttttttccttttt-cactaagaattaattatttaa-----atagGGTGTTGTGAAGAACATCATACCAGCTATAGCTTCAACGAATGCAATTATATCGGCTGCATGTGCACTAGAAACATTAAAGATTGCAACAGAGTGCAGCA
upper sequence: Vv05s0020g02820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G19180.1 (Arabidopsis thaliana), 3'ss of exon 6
--------------------------------------------gcaacacatatatgtatgagtggcaatatttttctaattatacagatttaaattcaca-gttctgtgataacacaagcaggtatt----------tctttgttgtttacagGGTGTGGTGAAAAATATTATACCGGCCATTGCATCCACAAATGCAATTATTTCAGCTGCATGTGCACTGGAAACCTTGAAGATTGTATCAGGATGCAGCA
|| | | ||| | | | | ||| || | | |||| | | | | | || || | | ||| | | || | | | |||||||||| ||||| || |||||||| ||||| ||||| ||||| || || || || || |||||||| ||||||||||||||||| || | ||||||||
gtatgtaaccgttctctcttattctttgtgttcactttcgtaaatttccagtcctcggctgaagtaccggtgactgtttaagcatggacgatgaaatccgtatgctatttgtattcatgaagaagtaatgagaggacgattgttttattgtgtagGGTGTGGTTAAAAACATAATACCGGCGATTGCTTCCACCAATGCGATAATATCTGCAGCTTGTGCACTTGAAACCTTGAAGATTGTGTCTGCATGCAGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttaaattcacagttctgtgataacacaagcaggtatttctttgttgtttacagGGTGTGGTGAAAAATATTATACCGGCCATTGCATCCACAAATGCAATTATTTCAGCTGCATGTGCACTGGAAACCTTGAAGATTGTATCAGGATGCAGCA
tgataac putative branch site (score: 2)
tttctttgttgttt putative PPT
tatttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaacacatatatgtatgagtggcaatatttttctaattatacagatttaaattcacagttctgtgataacacaagcaggtatttctttgttgtttacagGGTGTGGTGAAAAATATTATACCGGCCATTGCATCCACAAATGCAATTATTTCAGCTGCATGTGCACTGGAAACCTTGAAGATTGTATCAGGATGCAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
-caacaca
- - - - - - - - tgagtgg
- - - - - - - - - - - - - - - - - - - -atacaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacaagc