Sequence
atgc intronic sequence ATGC exonic sequence...aatagtgtttgatagaatattttctcatatacaaaacttgttcccactcagaaacatggggatagactctaaatattttatattggttttgtgtttgcagAAGCTACTACAGATGTACCCATCAGGGATGCAATGTAAAGAAGCAGGTGCAACGCCTATCCAAAGATGAAAGCATTGTGGTGACTACTTATGAAGGGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0068g01770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G106560_T01 (Zea mays), 3'ss of exon 1
aatagtgtttgatagaatattttctcatatacaaaac----ttgttcccactcagaaacatggggatagactctaaatattttatattggt---tttgtgtttgcagAAGCTACTACAGATGTACCCATCAGGGATGCAATGTAAAGAAGCAGGTGCAACGCCTATCCAAAGATGAAAGCATTGTGGTGACTACTTATGAAGGGGTG
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-------catggatatacatgcattcatatatatctcctcgtttttgctactagctagctagtttcttgattgaacttactcttttttcgcacgcatgtggatgcagAAGCTACTACAGATGCACACACCAAGGGTGCAACGTGAAGAAGCAGGTGCAGCGGCTGTCAAGGGACGAGGGCGTGGTGGTGACCACATACGAGGGCACC
upper sequence: Vv14s0068g01770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G054125_T01 (Zea mays), 3'ss of exon 1
aatagtgtttgatagaatattttctcatatacaaaacttgttcccactcagaaacatggggatagactctaaatatt-ttatattggttttgtgtttgcagAAGCTACTACAGATGTACCCATCAGGGATGCAATGTAAAGAAGCAGGTGCAACGCCTATCCAAAGATGAAAGCATTGTGGTGACTACTTATGAAGGGGTG
||| || | | | |||| ||| | || | | | || |||| ||| | | ||| || | |||| |||||||||||||||||||| || || || || ||||| || |||||||||||||| || || || | ||||| || | |||||||| || || || ||
tatatctctttct-gcacgttttttcacttcgttttgttatcactttcctgattcatgcacccagaatgaactcattcttttcgcacgcatgtggatgcagAAGCTACTACAGATGCACTCACCAAGGGTGCAACGTGAAGAAGCAGGTGCAGCGGCTGTCAAGGGATGAGGGCGTGGTGGTGACCACATACGAGGGCACC
upper sequence: Vv14s0068g01770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G26400.1 (Glycine max), 3'ss of exon 1
aatagtgtttgatagaatattttctcatatacaaaacttgttcccactcagaaacatggggatagactc-taaatattttatattggttttgtg-tttgcagAAGCTACTACAGATGTACCCATCAGGGATGCAATGTAAAGAAGCAGGTGCAACGCCTATCCAAAGATGAAAGCATTGTGGTGACTACTTATGAAGGGGTG
| | || || ||| |||| || || | | | | | || | || | | | ||| | | | | | || ||||||| ||||||||||| || || ||||| || |||||||| |||||||| ||||||||| || ||||||| ||| | | ||||| || |||||||| || |||
-ttgaaccgtaatcttatttttgttcatctaattaagtaggcagttat-attattttgtagttaaatacatgaattaatgaaacaaatgtgttgatttgcagGAGCTACTACAGGTGCACGCATCAAGGGTGCAATGTGAAGAAGCAAGTGCAACGCTTAACCAAAGACGAAGGAGTAGTGGTAACCACTTATGAGGGAGTG
upper sequence: Vv14s0068g01770.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G05880.1 (Glycine max), 3'ss of exon 1
aatagtgtttgatagaatattttctcatatacaaa-acttgttcccactcagaaacatggggatagactc-taaatattttatattggttttgtg-tttgcagAAGCTACTACAGATGTACCCATCAGGGATGCAATGTAAAGAAGCAGGTGCAACGCCTATCCAAAGATGAAAGCATTGTGGTGACTACTTATGAAGGGGTG
| | | ||| | || | | || | | | | | | || ||| | | | | | || ||| | | | || ||| ||| ||||||||||| || || ||||| || |||||||| |||||||| |||||||| ||| ||||||| ||| | | |||||||| |||||||| || |||
---attaccaacaaaaattctcattcttcttcatctaggtagttatattaattaatatgtagtgaaatacatgaactgattaaacaaatgtgatgatttacagGAGCTACTACAGGTGCACGCATCAAGGGTGCAATGTGAAGAAGCAAGTGCAACGGCTAACCAAAGACGAAGGGGTAGTGGTGACCACTTATGAGGGAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actcagaaacatggggatagactctaaatattttatattggttttgtgtttgcagAAGCTACTACAGATGTACCCATCAGGGATGCAATGTAAAGAAGCAGGTGCAACGCCTATCCAAAGATGAAAGCATTGTGGTGACTACTTATGAAGGGGTG
ctctaaa putative branch site (score: 3)
taaatattttatattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatagtgtttgatagaatattttctcatatacaaaacttgttcccactcagaaacatggggatagactctaaatattttatattggttttgtgtttgcagAAGCTACTACAGATGTACCCATCAGGGATGCAATGTAAAGAAGCAGGTGCAACGCCTATCCAAAGATGAAAGCATTGTGGTGACTACTTATGAAGGGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - atacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - gaaacat