Sequence
atgc intronic sequence ATGC exonic sequenceCCGGCTAACTCCTGGAACAGTTAAATTTGCAGCTTTTCATGTTCTCTCGCTGGAGGGTAGTAAGGGTTTGACAGTACTAGAGCTTGCAGAAAAAATTCAGgtgaattgtttatctttgtatcaagtgctcttttagaaactgtcagctttgttcttatgtctcttttcctgtcag
Basic information
species | Glycine max |
transcript | GLYMA13G30860.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G30860.1 (Glycine max), 5'ss of exon 12
lower sequence: AC196465.3_FGT006 (Zea mays), 5'ss of exon 6
CCGGCTAACTCCTGGAACAGTTAAATTTGCAGCTTTTCATGTTCTCTCGCTGGAGGGTAGTAAGGGTTTGACAGTACTAGAGCTTGCAGAAAAAATTCAGgtgaat-tgtttatctttgtatcaagtgctct---tttagaaactgtcagctttgttcttat-----gtctcttttcctgt-cag
||| || ||||||||||| || |||||||| ||||| ||||| |||||||| || || ||||| ||| | ||| || | || | ||||||||||||||||| | | | |||| | | | ||| || || | ||| | || | | | ||||||||| |||
CCGTCTGACTCCTGGAACTGTGAAATTTGCCGCTTTCCATGTGCTCTCGCTTGAAGGAAGTAATGGTCTCACAATATTGGATGTAGCAGAAAAAATTCAGgtacacatatatatcctgaacccccctcctcccgcccctaaagtggttatcttcaattttctaagctgattattttcctgttcag
upper sequence: GLYMA13G30860.1 (Glycine max), 5'ss of exon 12
lower sequence: AT1G28420.1 (Arabidopsis thaliana), 5'ss of exon 12
CCGGCTAACTCCTGGAACAGTTAAATTTGCAGCTTTTCATGTTCTCTCGCTGGAGGGTAGTAAGGGTTTGACAGTACTAGAGCTTGCAGAAAAAATTCAGgtgaattgtttatctttgtatcaagtgctcttttagaaac-tgtcagctttgttcttat-----gtctcttttcctgtcag------
|||| | || |||||||| || ||||||||||| ||||||||||| || || || || || ||||| |||||||| |||| ||||| || || |||||||| ||| | |||| | | | |||| |||| | | | ||| ||| | | |||| | | | ||
CCGGTTGACACCTGGAACCGTCAAATTTGCAGCCTTTCATGTTCTATCTCTTGAAGGAAGCAAGGGACTGACAGTATTAGAACTTGCTGACAAGATTCAGgtaaatctataatctatatttgctatgctgttttcatcgtatttgaatttttttcatttacatagtctttatgttttccattgaaag
upper sequence: GLYMA13G30860.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv10s0003g00270.t01 (Vitis vinifera), 5'ss of exon 3
CCGGCTAACTCCTGGAACAGTTAAATTTGCAGCTTTTCATGTTCTCTCGCTGGAGGGTAGTAAGGGTTTGACAGTACTAGAGCTTGCAGAAAAAATTCAGgtg--aattgtttatctttgtatcaagtgctcttttagaaactgtcagctttgttcttatgtctcttttcctgtcag
||| | || ||||||||||| |||||||| | |||||||||||| || || |||||||| ||||| | ||| || |||| |||||||| || |||||||| |||| ||| | || | | | |||||| | | | ||| | | ||| | || ||
TCGGTTGACACCTGGAACAGTCAAATTTGCTGTTTTTCATGTTCTTTCACTTGAGGGTAGCAAGGGGCTAACAATATTAGAACTTGCAGACAAGATTCAGgtagtaattatttgtaattttgaataa-gatcttttgtcctttattcttctctgatttaaatttgtttgcttgcaagMapped 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|208231970|gb|GE030897.1|GE030897EST: TGGAGGGTAGTAAGGGTTTGACAGTACTAGAGCTTGCAGAAAAAATTCAG AAATCTGGTCTTCGGGACCTGACGACCAGCAAAACACCTGAAGCATCAATT
genomic: TGGAGGGTAGTAAGGGTTTGACAGTACTAGAGCTTGCAGAAAAAATTCAGgtgaattgtt ... ttcctgtcagAAATCTGGTCTTCGGGACCTGACGACCAGCAAAACACCTGAAGCATCAATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCGGCTAACTCCTGGAACAGTTAAATTTGCAGCTTTTCATGTTCTCTCGCTGGAGGGTAGTAAGGGTTTGACAGTACTAGAGCTTGCAGAAAAAATTCAGgtgaattgtttatctttgtatcaagtgctcttttagaaactgtcagctttgttcttatgtctcttttcctgtcag
- - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT