Sequence
atgc intronic sequence ATGC exonic sequence...ttctgtgacaacaattctcattaaaattaaaaaactagtttcaagtaattgctaggctaatttgattgttgactttgagttgatggtggacttatttcagGCTATCATACTTTATATCAATGGTACCGAACAGTGGAGAGTGAACACTTTCCGGATCCCACAGGCCTTCGAGCTCGTATAGAACAATGGACATTTGGTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G018356_T02 (Zea mays), 3'ss of exon 9
ttctgtgacaacaattctcattaaaattaaaaaactagtttcaagtaattgctaggctaatttgattgttgactttgagt-tgatggtggacttattt-----cagGCTATCATACTTTATATCAATGGTACCGAACAGTGGAGAGTGAACACTTTCCGGATCCCACAGGCCTTCGAGCTCGTATAGAACAATGGACATTTGGTCT
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----atacttgcaacagctgt-atgttctttgaggtggtctcaggtg-ttattatgttcctatcatccacaatgtaaaatgtaattgttgttttacttgttgtcagGTTACCATACCCTTTATGAATGGTACCGAAAAGTGGAAAGCGAACATTTTCCTGATCCCACAGGACTTCGCGCTCGTCTCGAGCATTGGACCTTTGGACT
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA17G36310.1 (Glycine max), 3'ss of exon 12
ttctgtgacaacaattctcattaaaattaaaaaactagtttcaagtaattgctaggctaatttgattgttgactttgagt-----tgatggtggacttatttcagGCTATCATACTTTATATCAATGGTACCGAACAGTGGAGAGTGAACACTTTCCGGATCCCACAGGCCTTCGAGCTCGTATAGAACAATGGACATTTGGTCT
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---agagaaaaagatt-tcagcactttgtaaagtgggattgtgtgtgtgtgatgatgatatttggtttataatgtctggtgtttttttgggggggtgtaatccaGGGTATCACACTTTATATCAGTGGTATAGATCAGTGGAAAGTGAGCACTTTCCTGATCCAACTGGACTCAGAGCTCGTATCGAACAATGGACATTTGGAC-
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 12
ttctgtgacaacaattctcattaaaattaaaaaactagtttcaagtaattgctaggctaatttgattgttgactttgagttgat---ggtggacttatttcagGCTATCATACTTTATATCAATGGTACCGAACAGTGGAGAGTGAACACTTTCCGGATCCCACAGGCCTTCGAGCTCGTATAGAACAATGGACATTTGGTCT
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---aaagatttcaatactttgtgaagtgggattgtgtgtgtgatgatgatatttggtttataaagtcctgatttttttatttttttttatgggtgtaatccagGGTATCACACTTTATATCAGTGGTATAGATCAGTGGAAAGTGAGCACTTTCCCGATCCAACTGGACTCAGAGCTCGTATTGAACAATGGACATTTGGACT
upper sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------------------------------------------------------------------ttctgtgacaacaattctcattaaaattaaaaaactagtttcaagtaattgctaggctaatttgattgttgactttgag-ttgatggtggacttattt---cagGCTATCATACTTTATATCAATGGTACCGAACAGTGGAGAGTGAACACTTTCCGGATCCCACAGGCCTTCGAGCTCGTATAGAACAATGGACATTTGGTCT
| || || | | | || | | ||| | || | | || | | | || | | |||| |||| | | | || ||| |||| |||||||| |||||| | |||||| | ||||||||| ||| || || ||||| || || ||||||||||| ||||| ||||||||||||||||| |
gtcagtgtccattccatataccgctggttgggttttcgtaccaaagtgcattgttttatttgcatactgaactaccatcttgactcatcacgatgtcatcgacgccaatagataataatga-ctgggtgaaaattttctgtgatttagcct--tgattgattttgtgactctttacattattgtttaagcagGGTATCATACATTATATGAGTGGTACAAATCAGTGGAGAATGAGCATTTCCCGGACCCTACTGGCCTTCGAGCCCGTATCGAACAATGGACATTTGGCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattgctaggctaatttgattgttgactttgagttgatggtggacttatttcagGCTATCATACTTTATATCAATGGTACCGAACAGTGGAGAGTGAACACTTTCCGGATCCCACAGGCCTTCGAGCTCGTATAGAACAATGGACATTTGGTCT
cttatttc CT-rich tract
taatttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctgtgacaacaattctcattaaaattaaaaaactagtttcaagtaattgctaggctaatttgattgttgactttgagttgatggtggacttatttcagGCTATCATACTTTATATCAATGGTACCGAACAGTGGAGAGTGAACACTTTCCGGATCCCACAGGCCTTCGAGCTCGTATAGAACAATGGACATTTGGTCT
- - - -acaacaa
- - - - - - - - - -attaaaa
- - - - - - - - - - - - - -taaaaaa
- - - - - - - - - - - - - - - - - - - - tcaagta
- - - - - - - - - - - - - - - - - - - - - - - - ttgctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatggtg