Sequence
atgc intronic sequence ATGC exonic sequenceGTGGCATTTGACACTCCCTATCATACTTTGGGATGATTGCCATTGGATTGTGGTTCCTGCTACCTTTATTAGCGCCGCCTCTTTGTTTTGCATTGAAGAAgtatgatcctctcctttaccttaactcctggactatttaatgtatcaaaataagttgttctgtaatttattgatggatggattctttgaaggaaaagtat...
Basic information
species | Glycine max |
transcript | GLYMA07G07830.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G07830.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G114469_T02 (Zea mays), 5'ss of exon 3
GTGGCATTTGACACTCCCTATCATACTTTGGGATGATTGCCATTGGATTGTGGTTCCTGCTACCTTTATTAGCGCCGCCTCTTTGTTTTGCATTGAAGAAgtatgatcct-ctcctttaccttaactcctggactatttaatgtatcaaaataagttgttctgtaatttattgatggatggattctttgaaggaaaagtat
||||||| | |||||||| |||||||| ||||| || || | |||||||| ||||| ||||||||||| || || || || | || |||||||| |||||| | | || || ||| | ||| ||||| | || | | ||| | | | || | |||
GTGGCATCTTACACTCCCAATCATACTCTGGGAAGAATGTAAATGGATTGTTGTTCCAGCTACCTTTATCAGTGCTGCATCGCTATTCTGCATTGAGGAAgtaagtttcttctacttgtcattaggctctgga--agttcacatcctaaactgacac-tattgcactttcag-----------------------------
upper sequence: GLYMA07G07830.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G61320.1 (Arabidopsis thaliana), 5'ss of exon 3
GTGGCATTTGACACTCCCTATCATACTTTGGGATGATTGCCATTGGATTGTGGTTCCTGCTACCTTTATTAGCGCCGCCTCTTTGTTTTGCATTGAAGAAgtatgatcctctcctttaccttaactcctggactatttaatgtatcaaaataagttgttctgtaatttattgatggat-ggattctttgaaggaaaagtat
|||||| | || ||||| ||||| || |||||||| |||||||||||||| ||||||||||| || ||||| || |||||| |||| ||||| ||||||||| | ||||| ||| | | | || ||| | | | | || | || || ||||| ||| || || ||
TTGGCATCTAACTCTCCCAATCATTCTCTGGGATGAATGCCATTGGATTGTTGTTCCTGCTACTTTCATTAGTGCTGCCTCTCTGTTCTGCATAGAAGAAgtactttgtcctcctcctcctccatacttaccctcttttgcttga-atccttaaccatt--aaaccttctttttggattggaaactctgcag---------
upper sequence: GLYMA07G07830.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G45870.1 (Arabidopsis thaliana), 5'ss of exon 3
GTGGCATTTGACACTCCCTATCATACTTTGGGATGATTGCCATTGGATTGTGGTTCCTGCTACCTTTATTAGCGCCGCCTCTTTGTTTTGCATTGAAGAAgtatgatcctctcctttaccttaactcctggactatttaatgtatcaaaataagttgttctgtaatttattgatggatggattctttgaaggaaaagtat
|||||| | ||||||||| | || || |||||||||||||| |||| ||| || |||||||| || || || || |||||| | || ||||||||||||||| || | | | | |||| | | || || | | ||| || || | | | || ||
ATGGCATCTAACACTCCCTGTTATTCTCTGGGATGATTGCCACTGGAATGTAGTCCCTGCTACTTTCATCAGTGCTGCCTCTCTCTTCTGCATTGAAGAAgtacctaactttttctcgttcatagattagtcacattttttttttcttgcctcattatcactctttaagttggtgcttgaaatgtctgcag---------
upper sequence: GLYMA07G07830.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv15s0046g02870.t01 (Vitis vinifera), 5'ss of exon 3
GTGGCATTTGACACTCCCTATCATACTTTGGGATGATTGCCATTGGATTGTGGTTCCTGCTACCTTTATTAGCGCCGCCTCTTTGTTTTGCATTGAAGAAgtatgatcctctcctttacct-taactcctggactatttaatgtatcaaaataagttgtt--ctgtaatttattgatggatggattctttgaaggaaaagtat
|||||| | || ||||| ||||| || ||||| || ||| | |||||||||||||||||||| || || || || || ||| | || |||||||||||||| | | || || | ||| | || ||||| | | ||| | | | | | || |||| | | || |||| ||
CTGGCATCTCACTCTCCCCATCATCCTCTGGGAGGACTGCAACTGGATTGTGGTTCCTGCTACTTTCATCAGTGCTGCTTCTCTCTTCTGCATTGAAGAAgtctctttctttctctcccctgtggactctctgctattcactcattcatactttctagcttcctctaatctccc------tagagcttttgcag---------Mapped 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|298179929|gb|HO025144.1|HO025144EST: TGGTTCCTGCTACCTTTATTAGCGCCGCCTCTTTGTTTTGCATTGAAGAA GTTGGAGTTCTCATAGAGGAGCCGTTTGCAACACTTGCACTTGATGATCTC
genomic: TGGTTCCTGCTACCTTTATTAGCGCCGCCTCTTTGTTTTGCATTGAAGAAgtatgatcct ... attattgtagGTTGGAGTTCTCATAGAGGAGCCGTTTGCAACACTTGCACTTGATGATCTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGGCATTTGACACTCCCTATCATACTTTGGGATGATTGCCATTGGATTGTGGTTCCTGCTACCTTTATTAGCGCCGCCTCTTTGTTTTGCATTGAAGAAgtatgatcctctcctttaccttaactcctggactatttaatgtatcaaaataagttgttctgtaatttattgatggatggattctttgaaggaaaagtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctctcc