Sequence
atgc intronic sequence ATGC exonic sequence...tgcttgaagcagtttttctttgtaaagttctattttttgtttaaatttccttctcatagtgcaataatttattaaatttttttgtttgatatatcaacagGTTAGATGTCTACATCCATGATTATTTAGTGAAGAGGGATTTAAAGGCATCTGCTCAGGCCTTTCAAGCTGAGGGGAAAGTATCATCTGATCCTGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G07580.1 (Glycine max), 3'ss of exon 1
-tgcttgaagcagtttttctttgtaaagttctattttttgtttaaatttccttctcatagtgca-----ataatttattaaatttttttg-tttgatatatcaacagGTTAGATGTCTACATCCATGATTATTTAGTGAAGAGGGATTTAAAGGCATCTGCTCAGGCCTTTCAAGCTGAGGGGAAAGTATCATCTGATCCTGTTG
|| || | || | | | ||||| | | | | |||| ||| | || || || || || | |||| ||||| | ||| |||||||||| ||||||||||||||| | || ||||||||||| ||||| ||||||||||| ||||||||||| || ||||||||||| || |||||||
atgttttggg--attcgtgaatttgaagttgaaatagtgaaatc--tttctctcttactgttcacttggatgatgtaacgaggttttgcactttgaggtttca---gGTTAGATGTTTACATCCATGATTATCTTGTTAAGAGGGATTTGAAGGCTTCTGCTCAGGCTTTTCAAGCTGAAGGAAAAGTATCATCGGACCCTGTTG
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G07460.1 (Glycine max), 3'ss of exon 1
tgcttgaagcagtttttctttgtaaagttctattttttgtttaaatttccttctcatagtgcaat-----aatttattaaatttttttg-tttgatatatcaacagGTTAGATGTCTACATCCATGATTATTTAGTGAAGAGGGATTTAAAGGCATCTGCTCAGGCCTTTCAAGCTGAGGGGAAAGTATCATCTGATCCTGTTG
| | | | | ||| ||||| | | | | ||||| ||||| || || | || || | ||||| ||||| | ||| |||||||||| ||||||||||||||| | || |||||||| || ||||| ||||||||||||||||||||||| || |||||||| || || |||||||
-gtgttttgtgactggtgaatgtgaagtt--gatatagggaaatctttccctctcactgttcacttggctgatgtaacgagtttttgcactttgaggtttca---gGTTAGATGTTTACATCCATGATTATCTTGTTAAGAGGGACTTGAAGGCTTCTGCTCAGGCCTTTCAAGCTGAAGGAAAAGTATCCTCGGACCCTGTTG
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G16040.1 (Glycine max), 3'ss of exon 1
-------tgcttgaagcagtttttctttgtaaagttctattttttgtttaaatttccttctcatagtgcaataatttattaaatttttttgtttgatatatcaacagGTTAGATGTCTACATCCATGATTATTTAGTGAAGAGGGATTTAAAGGCATCTGCTCAGGCCTTTCAAGCTGAGGGGAAAGTATCATCTGATCCTGTTG
| || || | |||| ||| || | | || | |||| ||| | || | || | | || | ||| ||| | |||||||||||| || ||||||||||| ||||||||||||||||| || || || |||||||| ||||||||||| |||||||| || || || |||||||
atgtgggtttttttgtcatctgttctgtgt---gtgatgtacttgatgtaaagatccaaactttggttctcatatgtgcttgcttgctctgtgagatttt----cagGTTAGATGTTTATATCCATGATTACTTAGTGAAGAGGGATTTGAAAGCTTCAGCTCAGGCTTTTCAAGCTGAAGGGAAAGTGTCCTCGGACCCTGTTG
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G30910.1 (Glycine max), 3'ss of exon 1
tgcttgaagcagtttttctttgtaaagttctattttttgtttaaatttccttctcatagtgcaataatttattaaatttttttgtttgatatatcaa-----cagGTTAGATGTCTACATCCATGATTATTTAGTGAAGAGGGATTTAAAGGCATCTGCTCAGGCCTTTCAAGCTGAGGGGAAAGTATCATCTGATCCTGTTG
|| | | |||| | ||||| | ||| | || | | || | || | | || | |||| ||| | | | | |||||||||||| |||||||| ||||| ||||||||||||||||| ||||| || |||||||| ||||||||||| || ||||| || || || |||||||
-----gatgtgggtttttggtaatctgttctgtgtttcatgtacttgatgtaaagatccaaactttggttctcatatgtgtttgcttgctctgtgagattttcagGTTAGATGTTTACATCCACGATTACTTAGTGAAGAGGGATTTGAAGGCTTCAGCTCAGGCTTTTCAAGCTGAAGGCAAAGTGTCCTCGGACCCTGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttccttctcatagtgcaataatttattaaatttttttgtttgatatatcaacagGTTAGATGTCTACATCCATGATTATTTAGTGAAGAGGGATTTAAAGGCATCTGCTCAGGCCTTTCAAGCTGAGGGGAAAGTATCATCTGATCCTGTTG
gtttgat putative branch site (score: 5)
atagtgcaataattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcttgaagcagtttttctttgtaaagttctattttttgtttaaatttccttctcatagtgcaataatttattaaatttttttgtttgatatatcaacagGTTAGATGTCTACATCCATGATTATTTAGTGAAGAGGGATTTAAAGGCATCTGCTCAGGCCTTTCAAGCTGAGGGGAAAGTATCATCTGATCCTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
tgcttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaataa