Sequence
atgc intronic sequence ATGC exonic sequenceCAGTAAACAGATGTTTTGAGAAGAATCCGAAGTTTGATATGACACCCTTGCTTGGTGGAACAGACATTGTCTTCTCTTCACTAATCCACTCTTTTAGTTGgtttgtttctctgctctgtgcacagtttgtcttttagtttcaaaatagaaatactaaaacattttctgtaagataaagggtgcttttttctgtaatcttc...
Basic information
species | Glycine max |
transcript | GLYMA12G29450.3 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G29450.3 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g74460.2 (Oryza sativa), 5'ss of exon 6
CAGTAAACAGATGTTTTGAGAAGAATCCGAAGTTTGATATGACACCCTTGCTTGGTGGAACAGACATTGTCTTCTCTTCACTAATCCACTCTTTTAGTTGgtttgtttc--tctgctctgtgc-----acagtttgtcttttagtttcaaaatagaaatactaaaacattttctgtaagataaagggtgcttttttctgtaatcttc
| || |||||||| ||||||||||| || || ||||||||| |||| ||||| ||||| ||||| || ||| ||||| || || | || || |||| |||| | | || ||| | | ||| | ||||| | || || | || ||||| |
CTGTCAACAGATGCTTTGAGAAGAACCCTAAATTTGATATGGCACCATTGCTAGGTGGCACAGATGCAGTTTTCCTATCACTTATACATGCATTCAGCTGgtcagttttgttttttcctttgcctgaaatattttacactctagttgcccaactaaatctcaccaaaccattctgcag-----------------------------
upper sequence: GLYMA12G29450.3 (Glycine max), 5'ss of exon 6
lower sequence: AT2G28390.1 (Arabidopsis thaliana), 5'ss of exon 6
CAGTAAACAGATGTTTTGAGAAGAATCCGAAGTTTGATATGACACCCTTGCTTGGTGGAACAGACATTGTCTTCTCTTCACTAATCCACTCTTTTAGTTGgtttgtttct------ctgctctgtgcacagtttgtcttttagtttcaaaatagaaatactaaaacattttctgtaagataaag-ggtgcttttttctg-taatcttc
|| || ||||||||||||| |||||| | ||||| |||||||||||||||||||| || ||||| ||||||||| || || |||| || ||||| |||||||| ||| | |||| | | || ||| || ||| | | ||| |||||||| | |||| | || | || || | |||
CAATAGACAGATGTTTTGAAAAGAATGCAAAGTTCGATATGACACCCTTGCTTGGAGGGACAGATGCTGTCTTCTCATCTCTTGTCCATTCATTTAGCTGgtttgtctctaattttcaactctttaaatcaactgccttgtacattc----tttccctgctatt-tattttctgaataataatgtggagattgaggctactgatc---
upper sequence: GLYMA12G29450.3 (Glycine max), 5'ss of exon 6
lower sequence: Vv06s0004g02820.t01 (Vitis vinifera), 5'ss of exon 6
CAGTAAACAGATGTTTTGAGAAGAATCCGAAGTTTGATATGACACCCTTGCTTGGTGGAACAGACATTGTCTTCTCTTCACTAATCCACTCTTTTAGTTGgtttgtttctctgctctgtgcacagtttgtcttttagtt--tcaaaatagaaata--ctaaaacattttctgtaagataaag-ggtgcttttttctgtaatcttc
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CAGTAAATAGATGTTTTGAGAAGAATCCAAAGTTTGATATGACCCCTTTGCTCGGAGGAACAGATGTTGTCTTCTCTTCTCTCATTCATTCTTTCAATTGgtttgtttctc-gctcttt---tagcttgttttgtgtttgttggagctggaaatagataaaaaaaatttccttgttataggttggtatagaggaatctactcct-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|9564602|gb|BE474111.1|BE474111EST: CTTGGTGGAACAGACATTGTCTTCTCTTCACTAATCCACTCTTTTAGTTG GAATCCAGCTACATTTCTTCATGCCTACACTTGTCTACCTCTTGCATATGC
genomic: CTTGGTGGAACAGACATTGTCTTCTCTTCACTAATCCACTCTTTTAGTTGgtttgtttct ... atcgtatcagGAATCCAGCTACATTTCTTCATGCCTACACTTGTCTACCTCTTGCATATGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAGTAAACAGATGTTTTGAGAAGAATCCGAAGTTTGATATGACACCCTTGCTTGGTGGAACAGACATTGTCTTCTCTTCACTAATCCACTCTTTTAGTTGgtttgtttctctgctctgtgcacagtttgtcttttagtttcaaaatagaaatactaaaacattttctgtaagataaagggtgcttttttctgtaatcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA