Sequence
atgc intronic sequence ATGC exonic sequence...ccccctgtaatagagattttctccatgagtttgatcttagtttaatcttaataccggctcttatcagtattgttattgaattgccatacttgtttaacagGAACAAAGTTATCAGAAGATAGCAGGAAATATGGTGCAGATAATACATGTACCAGTGGTAGTACTTTATCAAGAGCTGCGCTAAATTATGCACGTGCCCG
Basic information
species | Glycine max |
transcript | GLYMA06G01120.3 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G01120.2 (Glycine max), 3'ss of exon 3
lower sequence: AT4G34660.2 (Arabidopsis thaliana), 3'ss of exon 3
------------ccccctgtaatagagattttctccatgagtttgatcttagtttaatcttaataccggctcttatcagtattgttattgaattgccatac-ttgtttaacagGAACAAAGTTATCAGAAGATAGCAGGAAATATGGTGCAGATAATACATGTACCAGTGGTAGTACTTTATCAAGAGCTGCGCTAAATTATGCACGTGCCCG
||| | | | | || | || ||| | | || ||| | | ||||| ||| ||| || | || || | || || | |||| || || || || || |||||||||||||||||| |||| ||||||||||| | ||||| ||| || | ||||| || || |||| ||||| ||
gtgatttttttgaccctttgagttttaacttattgtatttttttatgtctgttatagacttga-attggctca---caggcctgtctttcattttgcactcatttttcatcagGTACGAAATTGTCTGAGGATAGCAGGAAATATGGTTCAGAGAATACATGTACGAATGGTAACGTATTAACACGGGCTGCACTGAACTATGGGCGTGCTCG
upper sequence: GLYMA06G01120.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0001g13530.t01 (Vitis vinifera), 3'ss of exon 3
ccccctgtaatagagattttctccatgagtttgatcttagtttaatcttaataccggctcttatcagtattgttattgaattgccatacttgtttaacagGAACAAAGTTATCAGAAGATAGCAGGAAATATGGTGCAGATAATACATGTACCAGTGGTAGTACTTTATCAAGAGCTGCGCTAAATTATGCACGTGCCCG
| || | || |||| ||| || || || | | | | ||| | |||| || || | |||||| || ||||| |||||||| ||||| |||||||||| || || || ||||||||||| ||||| ||||| | |||||| ||| | ||| | || ||
------------gtgagctgctgagactgtttttcctttattggtatttcatttca--tgctgctttttcatttacgtacttgcaatctttat--aacagGTACCAAGTTGTCAGAAGACAGCAGAAAATATGGTGTTGAAAACACTTGTACCAGTGGCAGTACCTTATCTAAAGCTGCATTAAGCTTTGCTAGAGCTCG
upper sequence: GLYMA06G01120.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv03s0038g00460.t01 (Vitis vinifera), 3'ss of exon 3
ccccctgtaatagagattttctccatga-gtttgatcttagtttaatcttaat-------accggctcttatcagtattgttattgaattgccatacttgtttaacagGAACAAAGTTATCAGAAGATAGCAGGAAATATGGTGCAGATAATACATGTACCAGTGGTAGTACTTTATCAAGAGCTGCGCTAAATTATGCACGTGCCCG
||| | | || | | || |||| | || | |||| ||| | | || | || ||||| | | | || || |||||||| |||||||||| || ||||||||| ||||||||||||||| || ||||| ||||||||||||| ||| ||||| | |||||| | ||||||| ||| || ||
----gtgtgttggtgaaacttttgattttgttttttactattataattcaaatgaatgcaaaggacttgactttgttttgttgt-gtactgtca-acttgtttttcagGAACAAAATTGTCAGAAGATTGCAGGAAATATGGTGTTGAAAATACTTGTACCAGTGGTAATACGTTATCGAAAGCTGCATTGAATTATGGACGAGCTCGMapped 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|193633792|gb|FK582426.1|FK582426EST: CCGTGGTGTGGAAGGTTATATTGTAACTGGATCCAAGCAAGTTGAAATAG GAACAAAGTTATCAGAAGATAACAGGAAATATGGTGCAGATAATACGTGTA
genomic: CCGCGGTGTGGAAGGTTATATTGTAACTGGATCCAAGCAAGTTGAAATAGgtcagtaatt ... tgtttaacagGAACAAAGTTATCAGAAGATAGCAGGAAATATGGTGCAGATAATACATGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttaataccggctcttatcagtattgttattgaattgccatacttgtttaacagGAACAAAGTTATCAGAAGATAGCAGGAAATATGGTGCAGATAATACATGTACCAGTGGTAGTACTTTATCAAGAGCTGCGCTAAATTATGCACGTGCCCG
cttgttt CT-rich tract
tattgttattgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccccctgtaatagagattttctccatgagtttgatcttagtttaatcttaataccggctcttatcagtattgttattgaattgccatacttgtttaacagGAACAAAGTTATCAGAAGATAGCAGGAAATATGGTGCAGATAATACATGTACCAGTGGTAGTACTTTATCAAGAGCTGCGCTAAATTATGCACGTGCCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC