Sequence
atgc intronic sequence ATGC exonic sequencegtttggctgttttgagatttataatgctttctatttttttttctcttaaatgtatttggaatgtttgtccatatcctttagcatattagaatggtctcttagaattttcataaatgacttagGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCTTGATGGGAAGGAA
Basic information
species | Glycine max |
transcript | GLYMA13G05060.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 8
gtttggctgttttgagatttataatgctttctatttttttttctcttaaatgtatttggaatgtttgtccatatcctttagcatattagaatggtctcttagaattttcataaatgactt-agGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCTTGATGGGAAGGAA
||| | ||||| | || | || | |||| | ||| | | ||| | | | | | ||| | | || || | || |||| || ||||| || || | |||||| |||||||||||| | || || || ||||||||||||||||||||||| || | ||||||||| |||
-----------------tttggagagcttt------tgcattgagtaaatcatgcagggaacatatgttccaaaaatttcacttttctggcttccgtctaaattatcacaaaactattttcagGTTTACACAGTTGGCCCAGGATATGCACATGCTGAGGCACGTAAATCACCAGTTGTTGATGGTGTTGTTATGAGGAACCCTGATGGGAAAGAA
upper sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G15070.1 (Arabidopsis thaliana), 3'ss of exon 9
gtttggctgttttgagatttataatgctttctatttttttttctcttaaatgtatttggaatgtttgtccatatcctttagcatattagaatggtctcttagaattttcataaatgacttagGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCTTGATGGGAAGGAA
|| | || | || || |||||||| ||| | | | ||| || ||| | |||| | || | | || || | | |||| |||| || || || ||||| |||||||| || ||||| ||||| || || ||||||||||||||||| || |||||||||| ||||||||||||
--------gtcgtaaggct----atctggaatagttttttttttctggattatgttt----tggttgaagcttggctttgacgagttt---ttgactgacagtctaccctgaaata---cagGTCTACACTGTGGGTCCCGAATATGCACACGCTGAAGCAAGAAAATCACCTGTTGTTGATGGTGTAGTAATGAGAAATCCAGATGGGAAGGAA
upper sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G01310.2 (Arabidopsis thaliana), 3'ss of exon 9
gtttggctgttttgagatttataatgctttctatttttttttctcttaaatgtatttggaatgtttgtccatatcc-tttagcatattagaatggtct-cttagaattttcataaatgacttagGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCTTGATGGGAAGGAA
||||| | ||| || | | |||| | || || | || | | | || | || || | ||| ||| | || |||| |||||||| ||||||||||| || |||||||| ||||| ||||| |||||||||||||||||||||||||| ||| ||||||||||||
-----------------------atgctgcatggctttccacctgctga-tgtagcttttattgctgcttgtttctgtctggtgagcatgagttctcaactgacaatcttcctggtaaacacagGTCTATACAGTGGGTCCTGAATACGCACATGCTGAAGCAAGAAAGTCACCTGTTGTTGATGGTGTTGTTATGAGGAATACAGATGGGAAGGAA
upper sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 8
gtttggctgttttgagatttataatgctttc--tatttttttttctcttaaatgtatttggaatgtttgtccatatcctttagcat-attagaatggtctcttagaattttcataaatgacttagGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCTTGATGGGAAGGAA
| |||||| | || | |||| || || || |||| | | || | |||| ||| | | || || | | || |||| |||||||||||||| || ||||||||||| ||||||||||||||||||||||||||||||||||| |||||||||||||| | |||||||| |||
------------------atgtaatgcctatggtagtcttttgccttttccat-cattttcatttttcactttttatttttatcatcagttgatcaagcttcttgtcaatttataa------tagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
upper sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S112_67V6.1 (Physcomitrella patens), 3'ss of exon 8
gtttggctgttttgagatttataatgctttctatttttttttctcttaaatgtatttggaatgtttgtccatatcctttagcatattagaatggtctcttagaattttcataaatgacttagGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCTTGATGGGAAGGAA
| | || || || | || | || || || |||| | |||| | | || | | | ||| ||| | ||| ||||||||||||| || || |||||||| ||||| || || || |||||||||||||| |||||||| || ||||||| | |||||| |||||
----acatctgttagctttggcaaggactttggtcgattcgcctttttcatgtgt---gaatttcaagacgagattgttgccgacgtggtatg------------cttcttgcatg---cagGTGTATACAGTGGGGCCAGAATATGCTCATGCAGAAGCTAGAAAGTCTCCTGTTGTGGATGGTGTAGTAATGAGAAGTGCTGATGGAAAGGAG
upper sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ19878 (Selaginella moellendorffii), 3'ss of exon 8
gtttggctgttttgagatttataatgctttctatttttttttctcttaaatgtatttggaatgtttgtccatatcctttagcatattagaatggtctcttagaattttcataaatgacttagGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCTTGATGGGAAGGAA
| | | | | | || | | | | ||| || || |||| || || || || || |||||||| |||||||||||| | || || ||||||||||| || |||||| |||||| || ||||| || ||
--------------------------------------------------------------------gtagacaactcaacttcttgttcttagcagcc-gcctcttctgaactg---cagGTATACACTGTTGGACCAGAATATGCTCATGCTGAGGCACGAAAATCACCTGTTGTTGACGGGGTTGTTTTGAGAAGTCCCGATGGAAAAGAG
upper sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ07403 (Selaginella moellendorffii), 3'ss of exon 8
gtttggctgttttgagatttataatgctttctatttttttttctcttaaatgtatttggaatgtttgtccatatcctttagcatattagaatggtctcttagaattttcataaatgacttagGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCTTGATGGGAAGGAA
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--------------------------------------------------------------------gtagacaactcaacttcttgttcttagcagtc-gcctcttctgaactg---cagGTATACACTGTTGGACCAGAATATGCTCATGCTGAGGCACGAAAATCACCTGTTGTTGACGGGGTTGTTTTGAGAAGTCCTGATGGAAAAGAGMapped 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|207836474|gb|GD805687.1|GD805687EST: GATCCTATATTTATGAGGAATTTATGCCTACTGGAGGGACAGATGTTAAG GTGTATACAGTAGGTCCTGAATATGCGCACGACTGAGGCAAGGAA
genomic: GATCCTATATTTATGAGGAATTTATGCCAACTGGAGGGACAGATGTTAAGgtttggctgt ... aatgacttagGTGTATACAGTAGGTCCTGAATATGCGCATG-CTGAGGCAAGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccatatcctttagcatattagaatggtctcttagaattttcataaatgacttagGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCTTGATGGGAAGGAA
ttagaattttcataaa 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttggctgttttgagatttataatgctttctatttttttttctcttaaatgtatttggaatgtttgtccatatcctttagcatattagaatggtctcttagaattttcataaatgacttagGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCTTGATGGGAAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA