Sequence
atgc intronic sequence ATGC exonic sequence...gtggtcctatcatacgctcagttgcatacaatgtgcaggcatgacaattaacctgccaatatttactgttctctcaaacaactgattatgtgtgaaacagGTGAGTCACCATCCAACTGTCGTTGCCTGCCACTGTCAAGGTAGAGGTTGGAAGTTTTGGGCTGACAGTAACATTCGGTCAAAGTTTTGGGGAAGGTCAA
Basic information
species | Glycine max |
transcript | GLYMA17G14820.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 6
lower sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 5
gtggtcctatcatacgctcagttgcatacaatgtgcaggcatgacaattaacctgccaatatttactgttctctcaaacaactgattatgtg--tgaaacagGTGAGTCACCATCCAACTGTCGTTGCCTGCCACTGTCAAGGTAGAGGTTGGAAGTTTTGGGCTGACAGTAACATTCGGTCAAAGTTTTGGGGAAGGTCAA
|| | || | | | | || | || | | |||| | ||| ||||| | | | | | || | || |||| ||||||||||||||||| | |||||||||||| |||||| ||| ||||||||||||| ||||| |||| | |||||||||||||||| ||||| |
gtatgtcacacaaattttaactcaaatttagaatgtgatgaacataattg---ttagaatctttaccaagactagagaatatcattcttttggttataatagGTCAGTCACCATCCAACTGTTATCGCCTGCCACTGTGAAGGTAAAGGGTGGAAGTTTTGGGGTGACACTAACCTCAGGTCAAAGTTTTGGGGGAGGTCGA
upper sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 4
--------gtggtcctatcatacgctcagttgcatacaatgtgcaggcatgacaattaacctgccaatatttactgttctctcaaacaactgattatgtgtgaaacagGTGAGTCACCATCCAACTGTCGTTGCCTGCCACTGTCAAGGTAGAGGTTGGAAGTTTTGGGCTGACAGTAACATTCGGTCAAAGTTTTGGGGAAGGTCAA
| || | || | ||| | | ||| ||| | | || | || || | || |||| |||||||||| ||||| || ||||| || |||||||||| ||| |||||| ||| ||||| || ||||||||||||||| | || |||| ||||||||| | ||||
ctcttctatcaattaagtcctgaattccttagcaagatttatttttctctgatcattgtcatttcatcaccccctttttttgtg-----ttgtttat---tgaaacagGTTAGTCATCACCCAACACTCATTGCCTGCCATTGTGAAGGTAAAGGGTGGAAATTCTGGGCTGACAGTAACCTACGAACAAAATTTTGGGGACGATCAA
upper sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 6
--------gtggtcctatcatacgctcagttgcatacaatgtgcaggcatgacaattaacctgccaatatttactgttctctcaaacaactgattatgtgtgaaacagGTGAGTCACCATCCAACTGTCGTTGCCTGCCACTGTCAAGGTAGAGGTTGGAAGTTTTGGGCTGACAGTAACATTCGGTCAAAGTTTTGGGGAAGGTCAA
| || | || | ||| | | ||| ||| | | || | || || | || |||| |||||||||| ||||| || ||||| || |||||||||| ||| |||||| ||| ||||| || ||||||||||||||| | || |||| ||||||||| | ||||
ctcttctatcaattaagtcctgaattccttagcaagatttatttttctctgagcattgtcatttcatcaccccctttttttgtg-----ttgtttat---tgaaacagGTTAGTCATCACCCAACACTCATTGCCTGCCATTGTGAAGGTAAAGGGTGGAAATTCTGGGCTGACAGTAACCTACGAACAAAATTTTGGGGACGATCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattaacctgccaatatttactgttctctcaaacaactgattatgtgtgaaacagGTGAGTCACCATCCAACTGTCGTTGCCTGCCACTGTCAAGGTAGAGGTTGGAAGTTTTGGGCTGACAGTAACATTCGGTCAAAGTTTTGGGGAAGGTCAA
aatatttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtcctatcatacgctcagttgcatacaatgtgcaggcatgacaattaacctgccaatatttactgttctctcaaacaactgattatgtgtgaaacagGTGAGTCACCATCCAACTGTCGTTGCCTGCCACTGTCAAGGTAGAGGTTGGAAGTTTTGGGCTGACAGTAACATTCGGTCAAAGTTTTGGGGAAGGTCAA
- - - - - catacgc
- - - - - - - - - - - -gcataca
- - - - - - - - - - - - - - - -tgtgcag
- - - - - - - - - - - - - - - - - - - gcatgac
- - - - - - - - - - - - - - - - - - - - - - - - - acctgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caactga