Sequence
atgc intronic sequence ATGC exonic sequenceCCTTGGTGGCCAAGCTCATTGGACAGTTGGTCTTGTGGTAACTTTGATTACCATAAGCAGCGTAATTGCAGCTGATACATTTGCATTTCTTGGTGGCAAGgtatatagacttattggtttgcaacttagctatgttctctaatttatcacttatttaaagagtatttatatttggtaactgcccatttgtactgtcaatt...
Basic information
species | Glycine max |
transcript | GLYMA11G30030.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G30030.3 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os02g03460.1 (Oryza sativa), 5'ss of exon 3
CCTTGGTGGCCAAGCTCATTGGACAGTTGGTCTTGTGGTAACTTTGATTACCATAAGCAGCGTAATTGCAGCTGATACATTTGCATTTCTTGGTGGCAAGgtatatagacttat----tggtttgcaacttagctatgttctctaatttatcacttatttaaagagtatttatatttggtaactgcccatttgtactgtcaatt
|||||||| |||||||| ||||||||||| ||||| | ||| |||||| | || || ||| | ||||| |||||||||| ||| || ||| |||| ||||| | || | | | | || || | || | || |||| || || |||| | ||| || ||| | |||
TCTTGGTGGGCAAGCTCACTGGACAGTTGGACTTGTAGCAACCTTGATTTCTATTAGTAGCATTATTGCCGCTGATACATCTGCTTTCCTTTGTGGACGGgtatgttcttttcttctataatgtccagtttgatttcattttttattttagtg--taaagaagatatattattttttttaaaaaatatattatcttttgcaa--
upper sequence: GLYMA11G30030.3 (Glycine max), 5'ss of exon 5
lower sequence: AT2G45150.3 (Arabidopsis thaliana), 5'ss of exon 4
CCTTGGTGGCCAAGCTCATTGGACAGTTGGTCTTGTGGTAACTTTGATTACCATAAGCAGCGTAATTGCAGCTGATACATTTGCATTTCTTGGTGGCAAGgtatatagacttattggtttgcaacttagctatgttctctaatttatcacttatttaaagagtatttatatttggtaactgcccatttgtactgtcaatt
|||||||| |||||||||||||||||||| ||||||| ||| |||||| | | ||| | |||||||| | || |||||||| ||||| ||||| |||||| | || | | | | || || ||| | | | || || ||| ||| || | | | || ||
TCTTGGTGGTCAAGCTCATTGGACAGTTGGACTTGTGGCAACATTGATTTCTTTCAGCGGTGTAATTGCGACAGACACATTTGCTTTTCTCGGTGGAAAGgta---acaccaagaatgatacctcacagataagtttttt--tctacaaccgctttgaagttggatttaactagaaaatgttgcag--------------
upper sequence: GLYMA11G30030.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv15s0048g00240.t01 (Vitis vinifera), 5'ss of exon 4
CCTTGGTGGCCAAGCTCATTGGACAGTTGGTCTTGTGGTAACTTTGATTACCATAAGCAGCGTAATTGCAGCTGATACATTTGCATTTCTTGGTGGCAAGgtatatagacttattggtttgc-aacttagctatgttctctaatttatcacttatttaaagagtatttatatttggtaactgcccatttgtactgtcaatt-
|||||||| ||||||||||||||||| |||||||||||||| |||||| | || ||||| |||||||||| ||||||| ||| |||||||| |||||||||| | | | ||||| | || || | || | || | |||| | | || | || | | || ||| | | || |
TCTTGGTGGTCAAGCTCATTGGACAGTGGGTCTTGTGGTAACCTTGATTTCTATCAGCAGTATAATTGCAGCAGATACATATGCTTTTCTTGGGGGCAAGgtattgatgcacctaaatttgccaggttgtgtaactatcatactgtacta-ttatattatatgt-tctaaaaaggaatgcttatcatatttggcatcttcttMapped 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|21887057|gb|BQ740270.1|BQ740270EST: CCATAAGCAGCGTAATTGCAGCTGATACATTTGCATTTCTTGGTGGCAAG GCATTTGGTAGAACACCACTTACCAGCGTAAGTCCAAAGAAGACATGGGAG
genomic: CCATAAGCAGCGTAATTGCAGCTGATACATTTGCATTTCTTGGTGGCAAGgtatatagac ... tttcatgcagGCATTTGGTAGAACACCACTTACCAGCGTAAGTCCAAAGAAGACATGGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTTGGTGGCCAAGCTCATTGGACAGTTGGTCTTGTGGTAACTTTGATTACCATAAGCAGCGTAATTGCAGCTGATACATTTGCATTTCTTGGTGGCAAGgtatatagacttattggtttgcaacttagctatgttctctaatttatcacttatttaaagagtatttatatttggtaactgcccatttgtactgtcaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG