Sequence
atgc intronic sequence ATGC exonic sequenceCACACCTAATTCCTGAAAAGACTCCCAGGTCCATTTTTGTTTACTTTCGAGGACTGTTTTATGATGTTGGAAATGACCCCGAAGGTGGATACTATGCAAGgtatgtcttatttattacaacccacaaatttaaagaggggtggatatgtgaggcttttcctttatttttgcagcatgcctgcttcagaccactaacttgc...
Basic information
species | Glycine max |
transcript | GLYMA06G17140.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G17140.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os04g32670.1 (Oryza sativa), 5'ss of exon 3
CACACCTAATTCCTGAAAAGACTCCCAGGTCCATTTTTGTTTACTTTCGAGGACTGTTTTATGATGTTGGAAATGACCCCGAAGGTGGATACTATGCAAGgtatgtcttatttattacaacccacaaatttaaagaggggtggatatgtgaggcttttcctttatttttgcagcatgcctgcttcagaccactaacttgc
| ||| | || || | ||||| | || || || || ||||| || ||||| || ||||| ||||||||||||||| ||||| ||||||||||||| | | ||| ||| || ||| || | || | | || | || ||| | | | | || || | | |
CTCACTTGATCCCCCCTGACACTCCACGTTCAATCTTCGTCTACTTCCGGGGACTATTCTATGACACTGGAAATGACCCCGAGGGTGGTTACTATGCAAGgttagcaatgttt-tta-aagtaacagatctgaatttttatccttctg---gttttgtcccatgtactcacttcagtgatgttatacag-----------
upper sequence: GLYMA06G17140.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G023020_T01 (Zea mays), 5'ss of exon 3
CACACCTAATTCCTGAAAAGACTCCCAGGTCCATTTTTGTTTACTTTCGAGGACTGTTTTATGATGTTGGAAATGACCCCGAAGGTGGATACTATGCAAGgtatgtcttatttattacaaccca-caaatttaaagaggggtggatatgtgaggcttttcctttatttttgcagcatgcctgcttcagaccactaacttgc
| ||| | ||| | | | ||||| | || || || |||||||| || ||||| |||||||| || ||||||||||| || ||||||||||||||||| | || | | | || |||| || || || | ||| | || | || | || | | | | |
CTCACTTGATTTCCCCAGACACTCCACGCTCAATCTTCGTTTACTTCCGGGGACTTTTTTATGACACGGGGAATGACCCCGAGGGCGGATACTATGCAAGgtagcaactgcttttcaagtttgaacagatttgaatct---tgtatgtttgatacctt-cattcacttcaatattgt-catacag----------------
upper sequence: GLYMA06G17140.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G61840.1 (Arabidopsis thaliana), 5'ss of exon 3
CACACCTAATTCCTGAAAAGACTCCCAGGTCCATTTTTGTTTACTTTCGAGGACTGTTTTATGATGTTGGAAATGACCCCGAAGGTGGATACTATGCAAGgta-tgtcttatttattacaacccacaaatttaaagaggggtggatat-gtgaggcttttcc-----tttatttttgcagcat--gcctg---cttcagaccactaacttgc------------------------------------------------------------------------------------
||||| ||||||| ||||| ||||| | ||||| || ||||| || ||||| ||||||||||||| ||||||||||| || ||||| || ||||| ||||| | | || |||| | | | | | | | || | | | || | || || |||| || | || || ||| ||||
CACACTTAATTCCCGAAAAAACTCCTCGATCCATCTTCGTTTATTTCAGAGGATTGTTTTATGATGTGGGAAATGACCCTGAGGGTGGTTATTATGCGAGgtaatttttttcttatgaaagttcttagctattgttcataataaatttcataaatctcctaaaacagttcataattgctttatcggtttggaattttggacataaaactcaaaaaaggaaaatttatcagactgtttttagagccatggattgttcttataatcagtgatgatgtttgtttgtcaaactggcacag
upper sequence: GLYMA06G17140.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv17s0000g00120.t01 (Vitis vinifera), 5'ss of exon 3
CACACCTAATTCCTGAAAAGACTCCCAGGTCCATTTTTGTTTACTTTCGAGGACTGTTTTATGATGTTGGAAATGACCCCGAAGGTGGATACTATGCAAGgtatgtcttatttattacaacccacaaatttaaagaggggtggatatgtgaggcttttcctttatttttgcagcatgcctgcttcagaccactaacttgc-
| ||| | || || | | ||||| ||||| || ||||| ||||| |||||| |||| |||||||| ||||||||||| |||||||| || |||||||||||| || | ||| | | | | | | || || || | | ||||||| ||||| | || || |
CCCACTTGATCCCGCCAGACACTCCTAGGTCTATCTTTGTCTACTTCCGAGGATTGTTCTATGATGTAGGAAATGACCCAGAAGGTGGTTATTATGCAAGgtattcctcaca-atttttatatgttgacattggggtgtttagacatcgaagtgatatgaaatatttttaatgcatgtataaatcctttcaatgggagaga
upper sequence: GLYMA06G17140.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv01s0150g00180.t01 (Vitis vinifera), 5'ss of exon 3
CACACCTAATTCCTGAAAAGACTCCCAGGTCCATTTTTGTTTACTTTCGAGGACTGTTTTATGATGTTGGAAATGACCCCGAAGGTGGATACTATGCAAGgtatgtcttatttattacaacccacaaatttaaagaggggtggatatgtgaggcttttcctttatttttgcagcatgcctgcttcag-accactaacttgc--
| ||||||||||| || | || || ||||||| || |||||||| || || ||||||||||||| |||||||| |||||||| ||||||||||||||||| ||| | || ||| |||| || | | ||| | |||| |||| | | | |
CCCACCTAATTCCCCAAGAAACCCCTCGGTCCATCTTCGTTTACTTCCGTGGTTTGTTTTATGATGTGAATAATGACCCTGAAGGTGGTTACTATGCAAGgtatgtg--ggttagtgttttttttttcctttttcttttcctcttat-tgagaattgcattgaaatttgataccatgggcaattcaataataggggttaggttMapped 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|208264066|gb|GE061218.1|GE061218EST: GGACTGTTTTATGATGTTGGAAATGACCCTGAAGGTGGATACTATGCAAG AGGTGCCAGAGCAGCAGTGTGGGAGAACTTTAAGGACAATCCGCTGTTTGA
genomic: GGACTGTTTTATGATGTTGGAAATGACCCCGAAGGTGGATACTATGCAAGgtatgtctta ... tatcttacagAGGTGCCAGAGCAGCAGTGTGGGAGAACTTTAAGGACAATCCACTGTTTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACACCTAATTCCTGAAAAGACTCCCAGGTCCATTTTTGTTTACTTTCGAGGACTGTTTTATGATGTTGGAAATGACCCCGAAGGTGGATACTATGCAAGgtatgtcttatttattacaacccacaaatttaaagaggggtggatatgtgaggcttttcctttatttttgcagcatgcctgcttcagaccactaacttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggggtgg