Sequence
atgc intronic sequence ATGC exonic sequence...agtgacaccttggatatcatgttattcgttataattgcttctatttcttgctagagatcatctgaacactaacctacttatgtctcaaatgaaacaacagTTCATTTTTTTTAATGATGATGAGGATTCCCGGCAACCTGAAACAAGAGCAATAATGAATTGGTTGAGAGATATACGATTCACAGCATCTGCCACTTTGC
Basic information
species | Glycine max |
transcript | GLYMA20G31000.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G31000.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G71696.2 (Arabidopsis thaliana), 3'ss of exon 7
--------------------------------agtgacaccttg---gatatcatgttattcgttataattgcttctatttcttgctagagatcatctgaacact-aacctacttatgtctcaaatgaaacaacagTTCATTTTTTTTAATGATGATGAGGATTCCCGGCAACCTGAAACAAGAGCAATAATGAATTGGTTGAGAGATATACGATTCACAGCATCTGCCACTTTGC
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gtgattgtctgatgacgcttttgacgatcataaattttattttcaccgatgctgtgattttcatgatggtagctagattcggttggttttattcatagtcacgtttgacttacttaactcatacctgataatgcagTTCTTTCCTTTCAATGACGACTTGAATTTGAGGCAACCTGAAACTAAGGCAATTATGACTTGGCTGAGAGATATACGATTCACAGCGTCGGCTACTCTGC
upper sequence: GLYMA20G31000.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0157g00050.t01 (Vitis vinifera), 3'ss of exon 7
agtgacaccttggatatc---atgttattcgttataattgcttctatttcttgctagagatcatctgaacactaacctacttatgtctcaaatgaaacaaca--gTTCATTTTTTTTAATGATGATGAGGATTCCCGGCAACCTGAAACAAGAGCAATAATGAATTGGTTGAGAGATATACGATTCACAGCATCTGCCACTTTGC
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--tgatacaaatgacttctttataaaattcatgttgtttctttaggtgatttattccagtttccattatgataaa---agcgttgactgacatgaaatgacacagTTCTTTCCTCTGAATGATGATGTGGATGGACGACAACCTGAAACAAAAGCAATCATGAGGTGGTTGAAAGAGATACATTTCACAGCATCTGCCAGTTTGCMapped 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|192301522|gb|FG994762.1|FG994762EST: AGCGTGGTAATGCTAATAATATTGATCTGAATCGGGATTTTCCTGACCAG TTCANNNNNNNNAATGATGATGAGGATTCCCGGCAACCTGAAACAAGAGCA
genomic: AGCGTGGTAATGCTAATAATATTGATCTGAATCGGGATTTTCCTGACCAGgtatatatat ... gaaacaacagTTCATTTTTTTTAATGATGATGAGGATTCCCGGCAACCTGAAACAAGAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgctagagatcatctgaacactaacctacttatgtctcaaatgaaacaacagTTCATTTTTTTTAATGATGATGAGGATTCCCGGCAACCTGAAACAAGAGCAATAATGAATTGGTTGAGAGATATACGATTCACAGCATCTGCCACTTTGC
cactaac putative branch site (score: 1)
aaatgaaa TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtgacaccttggatatcatgttattcgttataattgcttctatttcttgctagagatcatctgaacactaacctacttatgtctcaaatgaaacaacagTTCATTTTTTTTAATGATGATGAGGATTCCCGGCAACCTGAAACAAGAGCAATAATGAATTGGTTGAGAGATATACGATTCACAGCATCTGCCACTTTGC
- - -caccttg
- - - - - - - - tcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - catctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cactaac