Sequence
atgc intronic sequence ATGC exonic sequence...atttattgctgttactgcttgtaggatttgatatttgaatcataatataagtttttttattatgctcttcattggctaatgatatgcaaacttgctacagGTTTAGCCCTGATCCAGAAACATTTATGGGCCTAGTACAACATGAAGGCGGGCCATGTGGTGTCTTAGCTGCCATACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g00780.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G129781_T01 (Zea mays), 3'ss of exon 1
atttattgc-tgttactgct-tgtaggatttgatatttgaatcataatataagtttttttattatgctcttcattggctaatgatatgcaaacttgctacagGTTTAGCCCTGATCCAGAAACATTTATGGGCCTAGTACAACATGAAGGCGGGCCATGTGGTGTCTTAGCTGCCATACAA
|| ||| | | | | || | | ||| ||| | | || | || ||||| ||| || | | | ||| | |||||||||| |||||||||||||| |||||| || |||||||||||||| || || |||||||| ||||| || | ||
gttgcttggatataaaaacagtgctaaacatattatgcttttcactacagaactgaaggacacatattcttctttgtcttac--tgtttaaaacaattgcagGTTTAGCTCTGATCCAGAAACAACTATGGGACTTGTACAACATGAAGGAGGTCCTTGTGGTGTTTTAGCAACCGTGCAG
upper sequence: Vv18s0072g00780.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G37000.1 (Glycine max), 3'ss of exon 1
atttattgctgttactgcttgtaggatt-tgatatttgaatcataatataagtttttttattatgctcttcattggctaatgatatgcaaactt-gctacagGTTTAGCCCTGATCCAGAAACATTTATGGGCCTAGTACAACATGAAGGCGGGCCATGTGGTGTCTTAGCTGCCATACAA
|| | |||| || | | || | ||| || | | ||||| || | || | | || || || | ||||| || |||||| |||| ||||||||| ||||||| | ||||| ||||||||||| || ||||||||||| || ||||| || || || || ||||||
tcttcaagatgttttgagttatttgtttcttatacttttaaatttgaataagattgtctacttt-ctttttatcg-ctaatactaccaaaactttgctatagGTTTAGCTCTGATCCTGTAACATCAATGGGCCTAGTGCAGCATGAAGGCGGTCCCTGTGGCGTTTTGGCAGCTATACAA
upper sequence: Vv18s0072g00780.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G30610.1 (Glycine max), 3'ss of exon 1
-atttattgctgttactgcttgtaggatttgatatttgaatcataatataagtttttttattatgctcttcattggctaatgatatgcaaactt-gctacagGTTTAGCCCTGATCCAGAAACATTTATGGGCCTAGTACAACATGAAGGCGGGCCATGTGGTGTCTTAGCTGCCATACAA
| | ||| || | | | | | | ||| || | | ||||| || | || | | || || |||| || || |||| |||||| ||| ||||||||| ||||||| | ||||| ||||||||||| || ||||||||||| || ||||| || || || || || |||
gttgtcttgacttttgagttatttgtttcttatacttttaaatttgaataagattgtctact-tactttttattg-cttatactatgaaaactttgctgtagGTTTAGCTCTGATCCTGTAACATCAATGGGCCTAGTGCAGCATGAAGGCGGTCCCTGTGGCGTATTGGCAGCTATTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataagtttttttattatgctcttcattggctaatgatatgcaaacttgctacagGTTTAGCCCTGATCCAGAAACATTTATGGGCCTAGTACAACATGAAGGCGGGCCATGTGGTGTCTTAGCTGCCATACAA
ggctaat putative branch site (score: 3)
tttttttattatgct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttattgctgttactgcttgtaggatttgatatttgaatcataatataagtttttttattatgctcttcattggctaatgatatgcaaacttgctacagGTTTAGCCCTGATCCAGAAACATTTATGGGCCTAGTACAACATGAAGGCGGGCCATGTGGTGTCTTAGCTGCCATACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - tgctgtt
- - - - - - - -tgcttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgcaa