Sequence
atgc intronic sequence ATGC exonic sequence...attttgtctgtgctgtgcattaattgtcttcctaattgactaaaaattggaagacaagattttactataattatactgacttgtgaattgttaaatgcagACTGATGTCTTTTTAATTTGCTCAAATGCAATGCAATACAATGCACCAGAGACTATATACCACAAACAG
Basic information
species | Glycine max |
transcript | GLYMA08G43050.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G43050.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G55040.2 (Arabidopsis thaliana), 3'ss of exon 5
attttgtctgtgct-gtgcattaattgtcttcctaattgactaaaa--attggaagacaagattttactataattatactgacttgtgaattgttaaatgcagACTGATGTCTTTTTAATTTGCTCAAATGCAATGCAATACAATGCACCAGAGACTATATACCACAAACAG
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--tagaactgctctagtgtatttgctaggatcatgtataatctataccgttgcttgacttc-ctttactaacctggttttggaactgtatttcttgaatgcagAGCGATGTCTTATTGATTTGCTCAAATGCAATGCAATACAATTCCTCAGACACTGTCTACTATAAACAG
upper sequence: GLYMA08G43050.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv19s0090g00610.t01 (Vitis vinifera), 3'ss of exon 5
attttgtctgtgctgtgcattaattgtct-tcctaattgactaaaaattggaagacaag-attttactataattatactgacttgtgaa-------ttgttaaatgcagACTGATGTCTTTTTAATTTGCTCAAATGCAATGCAATACAATGCACCAGAGACTATATACCACAAACAG
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---------gatttgaatttgaattccttctcccaagaaaccatgttctgatagaaaagtgtgactctttatatgtattggcttgtaaaattggttttcttgaatgtagAGTGACGTTTTTCTGATTTGCACCAATGCAATGCAATACAATGCCCCAGATACCATATACCATAAACAGMapped 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|193339504|gb|FK304823.1|FK304823EST: TATACTACCTTAGAACAATTTGAG ACTGATGTCTTTTTAATTTTGCTCAAATGCAATGCAATACAATGCACCAGA
genomic: TATACTACCTTAGAACAATTTGAGgtatgcaaac ... ttaaatgcagACTGATGTCTTTTTAA-TTTGCTCAAATGCAATGCAATACAATGCACCAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attggaagacaagattttactataattatactgacttgtgaattgttaaatgcagACTGATGTCTTTTTAATTTGCTCAAATGCAATGCAATACAATGCACCAGAGACTATATACCACAAACAG
tactgac putative branch site (score: 1)
acaagattttactata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attttgtctgtgctgtgcattaattgtcttcctaattgactaaaaattggaagacaagattttactataattatactgacttgtgaattgttaaatgcagACTGATGTCTTTTTAATTTGCTCAAATGCAATGCAATACAATGCACCAGAGACTATATACCACAAACAG
- - - tctgtgc
- - - - - - - -tgcatta
- - - - - - - - - - - - - -cttccta
- - - - - - - - - - - - - - - - - - - - - - - - - aagacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tactgac