Sequence
atgc intronic sequence ATGC exonic sequencegtattgtctattgactattgcatttcaattttcatcttctttggttctgtctctctcttggttgctaaaccatgcattgtggttgaaatgttttcttgtgcagTATGATCCTCCTCAAGATCCAAATGTTTTCATACATAGAGTAGGTCGAACTGCTCGGCTGGGTAAACAAGGTCATGCTGTTGTCTTCTTATTACCAAAG
Basic information
species | Glycine max |
transcript | GLYMA18G02760.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g07080.2 (Oryza sativa), 3'ss of exon 6
gtattgtctattgactattgcatttcaattttcatcttctttggttctgtctctctcttggttgctaaaccatgcattgtggttgaaatgttttcttgtgcagTATGATCCTCCTCAAGATCCAAATGTTTTCATACATAGAGTAGGTCGAACTGCTCGGCTGGGTAAACAAGGTCATGCTGTTGTCTTCTTATTACCAAAG
|| ||| ||| || | | || | | || | || | | | || || || | ||| |||||| ||||||||||| ||||||||||| ||||| ||||||||||||| || || ||||| || | | || |||| ||||| |||| ||| | ||||| |||
--------------gtaatgc-tttgaacat--aactccctaaattgtttccttgtgcttgtcattagttgatataaaacatttg------tttcttccccagTATGATCCACCTCAAGATCCCAATGTGTTCATACATAGAGCTGGCCGTACTGCACGTTATGATCAAGAAGGAGATGCTATTGTATTCCTCTTACCGAAG
upper sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G303752_T03 (Zea mays), 3'ss of exon 6
gtattgtctattgactattgcatttcaattttcatcttctttggttctgtctctctcttggttgctaaaccatgcattgtggttgaaatgttttcttgtgcagTATGATCCTCCTCAAGATCCAAATGTTTTCATACATAGAGTAGGTCGAACTGCTCGGCTGGGTAAACAAGGTCATGCTGTTGTCTTCTTATTACCAAAG
|| ||| | ||| || || |||| | | | || | | || || | ||||| | | ||||||||||| ||||||||||| || |||||||||||||||| || || || || || | | || |||| ||||| |||| || | |||||||||
----------------gttatattctgctcttccctccctaaatttgaatctcatgttcaggcatcagctgat--agtaaggatgca-tgtttgttcatccagTATGATCCACCTCAAGATCCCAACGTTTTCATACATAGAGCTGGCCGTACAGCACGCTATGATCAAGAAGGGGATGCTATTGTTTTTCTCTTACCAAAG
upper sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 6
-gtattgtct--attgactattgcatttcaattttcatcttctttggttctgtctctctcttggttgctaaaccatgcattgtggttgaaatgttttcttgtgcagTATGATCCTCCTCAAGATCCAAATGTTTTCATACATAGAGTAGGTCGAACTGCTCGGCTGGGTAAACAAGGTCATGCTGTTGTCTTCTTATTACCAAAG
| || | ||||| || | | || | | ||| || | || | || |||| ||| || || ||||| ||||||||||||| ||||||||||||||||| |||||||| ||||| ||||| ||||||||| |||| | |||||| ||||||||| || |||||||||||
tacactggcaggattgaacatatc-taacacatcatacattccccatttatctcctgtttctgaaagctaggtgatgattttctgtctg-----cttcttatgcagTATGATCCCCCTCAAGATCCAAATGTCTTCATACACAGAGTTGGTCGGACTGCTCGGATGGGCAGACAAGGAAGTGCTGTTGTTTTTCTATTACCAAAG
upper sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ23182 (Selaginella moellendorffii), 3'ss of exon 6
gtattgtctattgactattgcatttcaattttcatcttctttggttctgtctctctcttggttgctaaaccatgcattgtggttgaaatgttttcttgtgcagTATGATCCTCCTCAAGATCCAAATGTTTTCATACATAGAGTAGGTCGAACTGCTCGGCTGGGTAAACAAGGTCATGCTGTTGTCTTCTTATTACCAAAG
| ||||| | | | | ||| | || || || | || |||||| |||||||||||||||||||||||||| || | |||||||| || || ||||| | | || || ||| ||||||| ||| | | ||||||
-------------------------------gtaaacgctttgtgataaaagttttgaggctcgcttcgtaacaca--gtaatttga--gtcatcttgtccagTATGATCCTCCTCAAGATCCAAACACGTTTGTTCATAGAGTCGGGCGTACTGCAAGAATTGGACGCGTTGGCCATTCTGTTGTGTTCCTTCTTCCAAAG
upper sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ25181 (Selaginella moellendorffii), 3'ss of exon 6
gtattgtctattgactattgcatttcaattttcatcttctttggttctgtctctctcttggttgctaaaccatgcattgtggttgaaatgttttcttgtgcagTATGATCCTCCTCAAGATCCAAATGTTTTCATACATAGAGTAGGTCGAACTGCTCGGCTGGGTAAACAAGGTCATGCTGTTGTCTTCTTATTACCAAAG
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-------------------------------gtaaatgctttgtgataaaagttttgaggctcgcttcgtaacaca--gtaatttga--gtcatcttgtccagTATGATCCTCCTCAAGATCCAAACACGTTTGTTCATAGAGTCGGGCGTACTGCAAGAATTGGACGCGTTGGCCATTCTGTTGTGTTCCTTCTTCCAAAGMapped 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|207686380|gb|GD668746.1|GD668746EST: TGTAGATTGTATAGTGCAG TATGATCCTCCTCAAGATCCAAACGTTTTCATACATAGAGTAGGTCGAACT
genomic: TGTAGATTGTATAGTGCAGgtattgtcta ... tcttgtgcagTATGATCCTCCTCAAGATCCAAATGTTTTCATACATAGAGTAGGTCGAACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtctctctcttggttgctaaaccatgcattgtggttgaaatgttttcttgtgcagTATGATCCTCCTCAAGATCCAAATGTTTTCATACATAGAGTAGGTCGAACTGCTCGGCTGGGTAAACAAGGTCATGCTGTTGTCTTCTTATTACCAAAG
tgctaaa putative branch site (score: 2)
tgttttctt putative PPT
aaatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgtctattgactattgcatttcaattttcatcttctttggttctgtctctctcttggttgctaaaccatgcattgtggttgaaatgttttcttgtgcagTATGATCCTCCTCAAGATCCAAATGTTTTCATACATAGAGTAGGTCGAACTGCTCGGCTGGGTAAACAAGGTCATGCTGTTGTCTTCTTATTACCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT