Sequence
atgc intronic sequence ATGC exonic sequencegtgagttgtattgaattttcactattggtccaaggtccattaatgcattcagaagttaaattttcttcttaaccattggcagATTGCTAAGTTGAGTATGATCCCTGTATCCTGCCTGTTGGAAGTTTTTTTCGACAACATTCGGTATTCAAGAGATACAAAACTGAGCATAGGTGTTGTAC
Basic information
species | Glycine max |
transcript | GLYMA10G36620.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G36620.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G09810.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagttgtattgaattttcactattggtccaaggtccattaatgcattcagaagttaaattttcttcttaaccattggcagATTGCTAAGTTGAGTATGATCCCTGTATCCTGCCTGTTGGAAGTTTTTTTCGACAACATTCGGTATTCAAGAGATACAAAACTGAGCATAGGTGTTGTAC
|| | | || || |||| | || | || || || || | | | |||| || | || |||||||| ||| | || ||||| |||||||| ||| |||||||||| | || || || ||||| || ||||||||||||||||| ||||| || |||| |
gtaaat-gtgtttgctttttg-tgtta-tgtaacgtttcttgttgttggttctaatggtgtcttctcttttatgcttaacagATTGCAAAGCTTAGCATGATTCCTGTATCATGCTTGTTGGAAGTAGTATTTGATAAGATTCGTTACTCAAGAGATACAAAACTTAGCATTGGACTTGTTC
upper sequence: GLYMA10G36620.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G34020.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagttgtattgaattttcactattggtccaag---gtccattaatgcatt-cagaagtta-aattttcttcttaaccattggcagATTGCTAAGTTGAGTATGATCCCTGTATCCTGCCTGTTGGAAGTTTTTTTCGACAACATTCGGTATTCAAGAGATACAAAACTGAGCATAGGTGTTGTAC
||||| | | ||| | || | | |||| ||| | || ||| ||| || | || ||| |||||||||||| | || ||||| |||||||| || |||||||| | ||||||| || ||||| ||||| ||||||||||| || |||||||| | || |
-------gtattagacatcatctagctctgtaattgtgaaaagaaatgtattgctgattttatgattgtcctgtttttgcttgtcagATTGCTAAGCTCAGCATGATTCCTGTATCTTGTTTGTTGGAAATGGTTTTCGATAAGATTCGTTATTCCAGAGATACAAAGCTTAGCATAGGACTGGTTC
upper sequence: GLYMA10G36620.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0072g00080.t01 (Vitis vinifera), 3'ss of exon 2
gtgagttgt-attgaattttcactattggtccaaggtccatt--aatgcattcagaagttaaattttcttcttaaccattggcagATTGCTAAGTTGAGTATGATCCCTGTATCCTGCCTGTTGGAAGTTTTTTTCGACAACATTCGGTATTCAAGAGATACAAAACTGAGCATAGGTGTTGTAC
|| || | |||| | | | | | | | ||| ||| | ||||||||| || | ||||| | |||||||| ||| |||||||||||||||| |||||||| ||||||||| | || ||||| || |||||||||||||| ||||| || |||||| ||||| |
gtatattctgattgctctgtgtgtttaagcttacattttattgtaataattgcagaagttacatctctaatttaactgt---cagATTGCAAAGCTGAGTATGATCCCTGTGTCCTGCCTTTTGGAAGTTGTCTTGGACAAGATCCGGTATTCAAGAGACACAAAGCTCAGCATATCAGTTGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtccaaggtccattaatgcattcagaagttaaattttcttcttaaccattggcagATTGCTAAGTTGAGTATGATCCCTGTATCCTGCCTGTTGGAAGTTTTTTTCGACAACATTCGGTATTCAAGAGATACAAAACTGAGCATAGGTGTTGTAC
tcttaac putative branch site (score: 2)
ttttcttcttaacc CT-rich tract
ttaaattttcttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttgtattgaattttcactattggtccaaggtccattaatgcattcagaagttaaattttcttcttaaccattggcagATTGCTAAGTTGAGTATGATCCCTGTATCCTGCCTGTTGGAAGTTTTTTTCGACAACATTCGGTATTCAAGAGATACAAAACTGAGCATAGGTGTTGTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA