Sequence
atgc intronic sequence ATGC exonic sequenceTTGATCTTGGATTTCTTGAATGAAGTTGTTCAGAAGCCAACTGTACTAATAGGAAACTCTGTTGGAAGCCTTGCTTGTGTCATTGCTGCCTCAGgtatgtttgattcgtcccctagttaatggagatgtaacctaaatttctgtcaaacagttaaacatatagagagtttgcatccgaaacttcttttttgccttatctgtgaattatagtctccaaccag
Basic information
species | Glycine max |
transcript | GLYMA20G35660.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35660.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G38520.2 (Arabidopsis thaliana), 5'ss of exon 3
TTGATCTTGGATTTCTTGAATGAAGTTGTTCAGAAGCCAACTGTACTAATAGGAAACTCTGTTGGAAGCCTTGCTTGTGTCATTGCTGCCTCAGgtatgtttgattcgtcccctagttaatggagatgtaacctaaatttctgtcaaacagttaaacatatagagagtttgcatccgaaacttcttttttgccttatctgtgaattatagtctccaaccag
||||| | | |||||| | ||||| |||||||| || ||| | | || |||||||||||||||||||||||||||||||| |||||||||||| | || | | ||| || | | | | ||| || | | | | | || ||| | | || | | | ||||| |||
TTGATACTCAACTTCTTGGAGGAAGTGGTTCAGAAACCGACTATTTTGATTGGAAACTCTGTTGGAAGCCTTGCTTGTGTCATCGCTGCCTCAGgtctaaaccctt--ttcactatttga----------gtttgtttctacgtctaatgat-ataaacttcgattacttgagctaaagatgtca-------caagtatatgaatcttag-----------
upper sequence: GLYMA20G35660.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G38520.1 (Arabidopsis thaliana), 5'ss of exon 3
TTGATCTTGGATTTCTTGAATGAAGTTGTTCAGAAGCCAACTGTACTAATAGGAAACTCTGTTGGAAGCCTTGCTTGTGTCATTGCTGCCTCAGgtatg--tttgattcgtcccct-agttaatggagatgt-----aacctaaatttctgtcaaac-agttaaacatatagagagtttgcatccgaaacttcttttttgccttatctgtgaattatagtctccaaccag
||||| | | |||||| | ||||| |||||||| || ||| | | || |||||||||||||||||||||||||||||||| |||||||||||| | ||| | |||| | | || | |||| ||| | | || |||| || | ||| || ||| ||| | | || | ||| || |||
TTGATACTCAACTTCTTGGAGGAAGTGGTTCAGAAACCGACTATTTTGATTGGAAACTCTGTTGGAAGCCTTGCTTGTGTCATCGCTGCCTCAGgtctaaacccttttcactatttgagtttgtttctacgtctaatgatataaacttcgattacttgagctaaagatgtcacaagt----atatgaatcttaggtactaagtttctcatatatttggaaaaaaaaacag
upper sequence: GLYMA20G35660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv18s0089g01420.t01 (Vitis vinifera), 5'ss of exon 3
TTGATCTTGGATTTCTTGAATGAAGTTGTTCAGAAGCCAACTGTACTAATAGGAAACTCTGTTGGAAGCCTTGCTTGTGTCATTGCTGCCTCAGgtatgtttgattcgtcccctagttaatggagatgtaacctaaatttctgtcaaacagttaaacatatagagagtttgcatccgaaacttcttttttgccttatctgtgaattatagtc-tccaaccag
|| || |||||||||||| ||||| |||||| || |||||||| || ||||| ||||||||||| || |||||||||||||||||||||||||||||| | ||| ||| | | | | ||| | | | | | ||| ||||| | ||| | | ||| || || | |||| |||| ||| ||| | | || |||||| ||
TTAATATTGGATTTCTTGGATGAAATTGTTCGTAAACCAACTGTGCTGATAGGGAACTCTGTTGGGAGTCTTGCTTGTGTCATTGCTGCCTCAGgtatgctcaatttgtcttgtggctgaaggaagaatcag-tctttgtttgtgaaacaaccatttatacctgttgcat-catttgacacatggtttt--ccttg--tgtcaatcacattcctccaactagMapped 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|51343448|gb|CO984181.1|CO984181EST: ACTAATAGGAAACTCTGTTGGAAGCCTTGCTTGTGTCATTGCTGCCTCAG ATTCAAGTCAAACTCTTGTTAGAGGCATTGTGCTGTTAAATTGTGCTGGTG
genomic: ACTAATAGGAAACTCTGTTGGAAGCCTTGCTTGTGTCATTGCTGCCTCAGgtatgtttga ... ctccaaccagATTCAAGTCAAACTCTTGTTAGAGGCATTGTGCTGTTAAATTGTGCTGGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGATCTTGGATTTCTTGAATGAAGTTGTTCAGAAGCCAACTGTACTAATAGGAAACTCTGTTGGAAGCCTTGCTTGTGTCATTGCTGCCTCAGgtatgtttgattcgtcccctagttaatggagatgtaacctaaatttctgtcaaacagttaaacatatagagagtttgcatccgaaacttcttttttgccttatctgtgaattatagtctccaaccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC