Sequence
atgc intronic sequence ATGC exonic sequenceTGAGAAGCCATTCCTTGAGTGCACATCCGAATTTTATGCTGCTGAAGGTATGAAATACATGCAGCAATCAGATGCTCCAGATTACTTGAAGCATGTTGAGgtgcttcttttcccttacttttgtgtattatagttttagctttaatcattgacattcccatatgctgcttttgtattttttaacaaatggatcatgccaa...
Basic information
species | Glycine max |
transcript | GLYMA05G27240.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G27240.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G704093_T02 (Zea mays), 5'ss of exon 4
TGAGAAGCCATTCCTTGAGTGCACATCCGAATTTTATGCTGCTGAAGGTATGAAATACATGCAGCAATCAGATGCTCCAGATTACTTGAAGCATGTTGAGgt---gcttcttttcccttacttttgtgtattatagttttagctttaatcattgacattcccatatgctgcttttgtattttttaacaaatggatcatgccaa
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TGAAAAGCCCTTTCTTGAGTGCACTTCTGAATTTTATGCTACGGAAGGTGTTAAATATATGCAACAATCTGATATTCCAGACTACCTGAAGCATGTAGAGgtaaggatagatttccttatattcttcatattatttactcatgtagaacca--ggcaggcaca----ccatttaactgataatatgcacctgagctgtgcag-
upper sequence: GLYMA05G27240.1 (Glycine max), 5'ss of exon 4
lower sequence: AC155496.2_FGT009 (Zea mays), 5'ss of exon 4
TGAGAAGCCATTCCTTGAGTGCACATCCGAATTTTATGCTGCTGAAGGTATGAAATACATGCAGCAATCAGATGCTCCAGATTACTTGAAGCATGTTGAGgtgcttcttttcccttacttttgtgtattatagttttagctttaatcattgacattcccatatgctgcttttgtattttttaacaaatggatcatgccaa
||| || || || ||||| || || || |||||||||||| | |||||| | | ||| ||||| ||||| ||| |||||||||| |||||||||| ||||| | | || ||| ||| | || | | || | | || || | | || | | | || || |||
TGAAAAACCCTTTCTTGAATGTACTTCTGAATTTTATGCTACGGAAGGTGTTAGATATATGCAACAATCTGATATTCCAGATTACCTGAAGCATGTGGAGgtaaggatatat--ttccttatgttcttcatgttatctactcatgt-agaaccagtcaggcacaccatttaactgataatacgcacctgagctgtgcag-
upper sequence: GLYMA05G27240.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G46210.1 (Arabidopsis thaliana), 5'ss of exon 4
TGAGAAGCCATTCCTTGAGTGCACATCCGAATTTTATGCTGCTGAAGGTATGAAATACATGCAGCAATCAGATGCTCCAGATTACTTGAAGCATGTTGAGgtgcttcttttcccttacttttgtgtattatagttttagctttaatcattgacattcccatatgctgcttttgtattttttaacaaatggatcatgccaa
|||||| || |||||||| | || || ||||||||||| |||||||| ||||||||||||||||| || || | ||| || ||| |||||||||||||||||| | | ||| | | || | | || |||||| | | ||| ||| || || | ||| || | || | |||
TGAGAAACCTTTCCTTGAAGGGACCTCTGAATTTTATGCCGCTGAAGGAATGAAATACATGCAGCAGTCTGACGTTCCGGAGTACCTGAAGCATGTTGAGgtgccttgcatgacttcatatagtttcct-tatgattagctgcact-----acaggttaatagtct--ttctaaggtttcta-ctggtgattggtgcag-
upper sequence: GLYMA05G27240.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv10s0003g03710.t01 (Vitis vinifera), 5'ss of exon 4
TGAGAAGCCATTCCTTGAGTGCACATCCGAATTTTATGCTGCTGAAGGTATGAAATACATGCAGCAATCAGATGCTCCAGATTACTTGAAGCATGTTGAGgtgcttcttttcccttacttttgtgtattata-gttttagctttaatcattgacattcccatatgctgcttttgtattttttaacaaatggatcatgccaa---------------------------------------------------------------------------
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TGAGAAGCCATTCCTCGAGTGTACGTCTGAATTTTATGCTGCTGAAGGCATGAAATACATGCAGCAATCAGATGTTCCGGATTACTTGAAACATGTGGAGgtgcaatttgtttttt-cttctac-tactataagtgatattctctgctctttctcaccttttattgtatttctagtttattggctgtgcaaatcacatttatattctagctgacagaatgttcattcacaatttatgttcacgtctagaagatatgagggtgatgctttcttgcagMapped 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|207718095|gb|GD697861.1|GD697861EST: TGAAATACATGCAGCAATCAGATGCTCCAGATTACTTGAAGCATGTTGAG ACAAGATTGCAAGAGGAACATGAAAGATGTTTGTTGTACTTGGATGCAAGT
genomic: TGAAATACATGCAGCAATCAGATGCTCCAGATTACTTGAAGCATGTTGAGgtgcttcttt ... atttttatagACAAGATTGCAAGAGGAACATGAAAGATGTTTGTTGTACTTGGATGCAAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAGAAGCCATTCCTTGAGTGCACATCCGAATTTTATGCTGCTGAAGGTATGAAATACATGCAGCAATCAGATGCTCCAGATTACTTGAAGCATGTTGAGgtgcttcttttcccttacttttgtgtattatagttttagctttaatcattgacattcccatatgctgcttttgtattttttaacaaatggatcatgccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC