Sequence
atgc intronic sequence ATGC exonic sequenceTGGTGGAGAGGGAAGTGGGAAACGTAGCTCTGAGTTGTCAACTACGGAGAGACAAGAAATTCAGATAAAGAAAGCAAAGCTAATCAACATGCTTGATGAGgtaatcttttttatttcttctgtatttgatttataagtgcataaataaatgaacaaatagattttatggtactgttttttaattatagtcagagtttcgt...
Basic information
species | Glycine max |
transcript | GLYMA10G10040.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G10040.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os11g06020.1 (Oryza sativa), 5'ss of exon 2
TGGTGGAGAGGGAAGTGGGAAACGTAGCTCTGAGTTGTCAACTACGGAGAGACAAGAAATTCAGATAAAGAAAGCAAAGCTAATCAACATGCTTGATGAGgtaatcttttttatttcttctgtatttgatttat-aagtgc-ataaataaatgaacaaatagattttatggt-actgttttttaattatagtcagagtttcgt
| || | | | | | ||| |||| || ||||| | || || | ||||| ||||||| |||||| || ||||||||||||||||| | | || ||| || || || ||| || || | | | | | | |||| || | | || |||| | || |
CGCCAAGAGCGGCGGCGCGCCGCCGCCGCCGGAGATGTCGACGGCGGAGCGGCAGGAGCTGCAGATGAAGAAAGGAAAGCTGATTAACATGCTTGATGAGgtcag-taattaattaattaattaattaattaattgagcactgttagtttttttctttttgttttttgtgattagaaaaacgcaagtatattgcttgtatt--
upper sequence: GLYMA10G10040.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G35940.2 (Arabidopsis thaliana), 5'ss of exon 2
TGGTGGAGAGGGAAGTGGGAAACGTAGCTCTGAGTTGTCAACTACGGAGAGACAAGAAATTCAGATAAAGAAAGCAAAGCTAATCAACATGCTTGATGAGgtaatcttttt-tatttcttctgtatttgatttataagtgcataaataaatgaacaaatagattttatggtactgttttttaattatagtc----agagtttcgt
|| | ||| | | ||||||||| ||| | || | |||||||||||||| ||||| ||||||||||| || | ||||||||| ||||||||| | | | | | | | || | | | | | | | ||| ||| | || || | ||| ||| ||||
CGGAGCAGAAGCAGCCGGGAAACGTCCGGTGGAGCTAGGCACGGCAGAGAGACAAGAAATACAGATGAAGAAAGCAAAACTTAGTAACATGCTTCATGAGgtaacaacaatacgtattatatacaataagcctacatatac-tgagtgctct--cttatatcacacatgaagtggacttaaaagttctgtccctaagattttc--
upper sequence: GLYMA10G10040.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0105g00230.t01 (Vitis vinifera), 5'ss of exon 9
TGGTGGAGAGGGAAGTGGGAAACGTAGCTCTGAGTTGTCAACTACGGAGAGACAAGAAATTCAGATAAAGAAAGCAAAGCTAATCAACATGCTTGATGAGgtaatcttttttatttcttctgtatttgatttataagtgcataaataaatgaacaaatagattttatggtactgttttttaatt-atagtcagagtttcgt-----
||| ||||| ||| ||||| ||| | || | |||||| | ||||| ||||| |||||||| |||||||| ||||| |||||||||||||||||||| | || | || ||| |||| | | || | || || | ||| | | ||||||||| || | ||||| |
TGGAGGAGAAACAAGCACCAAACGCAGCGCCGACCTTTCAACTGCTGAGAGGCAAGAGATTCAGATGAAGAAAGCTAAGCTCCTCAACATGCTTGATGAGgtatgacatgagggctcgta-atacttgttttaccattcca-----atttggtgaagttcttttctttttcttgttttttattttggaaatggagttgtttttcatMapped 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|5753641|gb|AI960928.1|AI960928EST: GACAAGAAATTCAGATAAAGAAAGCAAAGCTAATCAACATGCTTGATGAG GTGGAGCAAAGGTACAGGCAGTACCACAACCAGATGAAGATAGTGATATCC
genomic: GACAAGAAATTCAGATAAAGAAAGCAAAGCTAATCAACATGCTTGATGAGgtaatctttt ... gggattgaagGTGGAGCAAAGGTACAGGCAGTACCACAACCAGATGAAGATAGTGATATCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTGGAGAGGGAAGTGGGAAACGTAGCTCTGAGTTGTCAACTACGGAGAGACAAGAAATTCAGATAAAGAAAGCAAAGCTAATCAACATGCTTGATGAGgtaatcttttttatttcttctgtatttgatttataagtgcataaataaatgaacaaatagattttatggtactgttttttaattatagtcagagtttcgt
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG