Sequence
atgc intronic sequence ATGC exonic sequencegcaagcatgactatatatttcaactttttaagtacaatttgtacatttttctttatattgcagtttgtaattggctttacattttttattgcagTGTTGGTTTGACAGAGCGGGAGGAGGGTGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAG
Basic information
species | Glycine max |
transcript | GLYMA06G01280.3 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 6
lower sequence: AT4G34570.1 (Arabidopsis thaliana), 3'ss of exon 8
gcaagcatgactatatatttcaactttttaagtacaatttgtacatttttctttatattgcagtttgtaattggctttacattttttattgcagTGTTGGTTTGACAGAGCGGGAGGAGGGTGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAG
| | ||| || | | |||| |||| ||| | ||| | ||| || | ||||| | ||||| ||| |||| |||| |||| ||| | ||||| |||||| | ||||| |||||||| ||||| ||||| ||||||||||| |
----gta-aactttaattcagcatttttctttcacaacttgaag--ctttgtggccattacactgataaattga----aagtttttaatttcagTATTGGACTGACTGAGAGAGAGGAAGGTGACCTTGGACCCGTTTATGGATTTCAGTGGAGACACTTTGGTGCTAA
upper sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0001g12940.t01 (Vitis vinifera), 3'ss of exon 5
gcaagcatgactatatatttcaactttttaagtacaatttgtacatttttctttatattgcagtttgtaattggctttacattttt-tattgcagTGTTGGTTTGACAGAGCGGGAGGAGGGTGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAG
|| | |||| | | |||| | ||||| |||| | | || || | | | ||||||| ||||||||||||| |||| ||||| ||||||||||| | |||||||| || ||||| ||||||||||||||
-------------------------------gttctattttagaact--gctttgtcctgcag--ggtaact---tatatatctatatgttgcagTATTGGTTTGACAGATAGGGAAGAGGGGGACTTGGGACCCATATATGGGTTCCAGTGGAGACACTTTGGTGCCAG
upper sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 7
gcaagcatgactatatatttcaactttttaagtacaatttgtacatttttctttatattgcagtttgtaattggctttacattttttattgcagTGTTGGTTTGACAGAGCGGGAGGAGGGTGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAG
||||| || | | ||| | | | | || | || || | | || | || | | ||| | |||| |||| |||| ||| |||| |||| ||||||||||||||||| | |||||||| || ||||||||||||||||| ||
gcaag--tggttgtctatccatatctactttgctaaactggtgtgtt-----tcgtgcaattcttactgatatattcaatattctctatttcagTATTGGCTTGGCAGACAGGGAAGAGGGTGACTTGGGACCCATATATGGGTTCCAGTGGAGGCACTTTGGTGCTAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|192311470|gb|FK005201.1|FK005201EST: AAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAATACCTTAATGG TGTTGGTTTGACAGAGCGGGAGGAGGGTGACTTGGGACCTGTTTATGGGTT
genomic: AAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAATACCTTGATGGgcaagcatga ... tttattgcagTGTTGGTTTGACAGAGCGGGAGGAGGGTGACTTGGGACCTGTTTATGGGTT
EST:
gi|192311469|gb|FK005200.1|FK005200EST: AAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAATACCTTAATGG TGTTGGTTTGACAGAGCGGGAGGAGGGTGACTTGGGACCTGTTTATGGGTT
genomic: AAAGGCATTCATATTTGGGATGGCAATGCATCCAGAGAATACCTTGATGGgcaagcatga ... tttattgcagTGTTGGTTTGACAGAGCGGGAGGAGGGTGACTTGGGACCTGTTTATGGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtacatttttctttatattgcagtttgtaattggctttacattttttattgcagTGTTGGTTTGACAGAGCGGGAGGAGGGTGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAG
ttttttatt CT-rich tract
atttttctttatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcaagcatgactatatatttcaactttttaagtacaatttgtacatttttctttatattgcagtttgtaattggctttacattttttattgcagTGTTGGTTTGACAGAGCGGGAGGAGGGTGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG