Sequence
atgc intronic sequence ATGC exonic sequenceAGATGGCCCTGGATTGCTTCTTTGCAGTTTGGTTTGTAGTAGGAAATGTTTGGATCTTTGGAGGTCACACTTCTCCTTCTGATGCTCCACAATTGTATAGgtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgggcttcatttcatgcag
Basic information
species | Glycine max |
transcript | GLYMA15G01570.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G01570.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g54624.1 (Oryza sativa), 5'ss of exon 3
AGATGGCCCTGGATTGCTTCTTTGCAGTTTGGTTTGTAGTAGGAAATGTTTGGATCTTTGGAGGTCACACTTCTCCTTCTGATGCTCCACAATTGTATAGgtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgggcttcatttcatgcag-
|||||||| ||||||| |||||||| || |||||||| ||||||||||| ||||| ||||| || | ||||| || | ||||||||| | ||||| ||||| | | | ||| ||| || | || | || || || |||| | | ||| || | |||
AGATGGCCTTGGATTGTTTCTTTGCTGTGTGGTTTGTCGTAGGAAATGTGTGGATATTTGGCGGGCGTTCTTCTGCTGCCGATGCTCCAAACTTGTACAGgtaaatacaaat-attttttgtgtgga-----taagatgctcccttga-tctt-----gttgctgacttttttccctgccag
upper sequence: GLYMA15G01570.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G089466_T01 (Zea mays), 5'ss of exon 3
AGATGGCCCTGGATTGCTTCTTTGCAGTTTGGTTTGTAGTAGGAAATGTTTGGATCTTTGGAGGTCACACTTCTCCTTCTGATGCTCCACAATTGTATAGgtacttgtatctcattgttt--ttgctcaa---cctgtattttactttctcgagtcttcaaataatctgggcttcatttcatgcag
|||||||||||||||| |||||||| || |||||||| || ||||| || ||||| ||||| || | ||||| || ||||||| || | ||||| ||||| ||| | || ||| | | | ||| | | |||| | || || | | | || | | || |||
AGATGGCCCTGGATTGTTTCTTTGCCGTCTGGTTTGTTGTTGGAAACGTGTGGATATTTGGTGGCCGTTCTTCTGCTGCTGATGCACCGAACTTGTACAGgtaaatgtgaactgctcttcaattgatgagatgtcactatgtcagcttctttatcctgcagctgacttt--ctacttcccac-cag
upper sequence: GLYMA15G01570.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G80400.1 (Arabidopsis thaliana), 5'ss of exon 3
AGATGGCCCTGGATTGCTTCTTTGCAGTTTGGTTTGTAGTAGGAAATGTTTGGATCTTTGGAGGTCACACTTCTCCTTCTGATGCTCCACAATTGTATAGgtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgggcttcat----ttcatgcag
||||||| | ||||| |||||||| || |||||||| || || ||||| ||||| |||||||||||| | |||||||||||| |||| || |||| |||||| | | | | ||| || |||| | ||| || | ||| |||| ||| |||||
AGATGGCGATTGATTGTTTCTTTGCGGTGTGGTTTGTTGTGGGGAATGTATGGATATTTGGAGGTCACTCATCTCCTTCTGATTCTCCTAAACTGTACAGgtacacgccttcgact--------tcatccgctattatgtcccaatgaggaactgaa-attctaacactcatgtttttcttgcag
upper sequence: GLYMA15G01570.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0002g05120.t01 (Vitis vinifera), 5'ss of exon 3
AGATGGCCCTGGATTGCTTCTTTGCAGTTTGGTTTGTAGTAGGAAATGTTTGGATCTTTGGAGGTCACACTTCTCCTTCTGATGCTCCACAATTGTATAGgtacttgt-atctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgg-gcttcat----ttcatgcag
|||||||| |||| |||||||||||||| |||||||| || || ||||| ||||| |||||||||||| ||||||| ||||||||||| ||||||| ||||| | || | ||| | | || | | |||| | || | | | || | | || | | || | ||| |||||
AGATGGCCTTGGACTGCTTCTTTGCAGTGTGGTTTGTTGTGGGCAATGTGTGGATATTTGGAGGTCACTCTTCTCCCTCTGATGCTCCCAAATTGTACAGgtaatagttgtagttatgtatatagtccatttctattagaattccaccccttttgagccactcaagtgtctcttgcccttcctgcagMapped 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|51335723|gb|CO979589.1|CO979589EST: ACAATTGTATAG GTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATT
genomic: ACAATTGTATAGgtacttgtat ... tttcatgcagGTTATGTATTGTTTTTCTTACCTTTAGCTGTATCGGATATGCAATGCCATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATGGCCCTGGATTGCTTCTTTGCAGTTTGGTTTGTAGTAGGAAATGTTTGGATCTTTGGAGGTCACACTTCTCCTTCTGATGCTCCACAATTGTATAGgtacttgtatctcattgtttttgctcaacctgtattttactttctcgagtcttcaaataatctgggcttcatttcatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG