Sequence
atgc intronic sequence ATGC exonic sequence...gttagatctaatattcaatatttatctcttttattctctcataaaaaagaccgtctcactctaattctcacaaatgttttttgaactaaaaatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCATCCATGTCGACATGGAGCAGTGATGAAGAAAATCATTGATGTGTTGATGT
Basic information
species | Glycine max |
transcript | GLYMA09G36540.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G36540.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G61500.1 (Arabidopsis thaliana), 3'ss of exon 7
---------gttagatctaatattcaatatttatctcttttattctctcataaaaaa------gaccgtctcactctaattctcacaaatgt------tttttgaact--------aaaaatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCATCCATGTCGACATGGAGCAGTGATGAAGAAAATCATTGATGTGTTGATGT
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gtaaaaggaagacaatctcaactgcatcaattaccctttttgttattccaccaaagttttcctgacttatgtcttctgaatctgaccaatgtagagtatttttgtgatcgtctttcaaaaatgc-acagGTCACAATCGAAGATCATCCACACTTGCCTGGTAAACATGCTTCAGTTCATCCATGTCGGCATGGAGCTGTTATGAAGAAAATCATTGATGTATTAATGT
upper sequence: GLYMA09G36540.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S62_116V6.2 (Physcomitrella patens), 3'ss of exon 9
gttagatcta-atattcaatatttatctcttttattctctcataaaaaagaccgtctcactctaattctcacaaatgttttttgaactaaaaatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCATCCATGTCGACATGGAGCAGTGATGAAGAAAATCATTGATGTGTTGATGT
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aaaatatatatatattcgaaacatat-tcaaacgtccaaaactgttgcactttgtaaaaaaatccttctcagtaatagcggcctttcttaattgatcttagGTGACGATTGAAGATCATCCACATATGCCAGGAAAGCATGCATCCATCCATCCTTGCAGGCATGGTGCAGTTATGAAGAAAATCATTGACATACTCCTTT
upper sequence: GLYMA09G36540.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ14759 (Selaginella moellendorffii), 3'ss of exon 7
gttagatctaatattcaatatttatctcttttattctctcataaaaaagaccgtctcactctaattctcacaaatgttttttgaactaaaaatgt--tgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCATCCATGTCGACATGGAGCAGTGATGAAGAAAATCATTGATGTGTTGATGT
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----------------------------------------------------gtaagttggagaacgatgggatttttattggaactgatattggcatacagGTTACAATTGAGGACCATCCACACATGGCTGGGAAGCATGCATCAGTTCATCCTTGCCGCCATGCCCCGGTTATGAAAAAGATCATCGCCATTTTGTTGT
upper sequence: GLYMA09G36540.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ26505 (Selaginella moellendorffii), 3'ss of exon 7
gttagatctaatattcaatatttatctcttttattctctcataaaaaagaccgtctcactctaattctcacaaatgttttttgaactaaaaatgttgca--gGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCATCCATGTCGACATGGAGCAGTGATGAAGAAAATCATTGATGTGTTGATGT
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----------------------------------------------------gtaagttggagaacgatgggatttttattggaactgatattggcacacagGTTACAATTGAGGACCATCCACACATGGCTGGGAAGCATGCATCAGTTCATCCTTGCCGCCATGCCCCGGTTATGAAAAAGATCATCGCCATTTTGTTGTMapped 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|21888310|gb|BQ741523.1|BQ741523EST: AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGATCATGCACACAAAACG GTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
genomic: AACCAGAACTTGTTCTTGAAGATGTTAGTCAAGATCATGCACACAAAACGgtgagatatg ... aatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagaccgtctcactctaattctcacaaatgttttttgaactaaaaatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCATCCATGTCGACATGGAGCAGTGATGAAGAAAATCATTGATGTGTTGATGT
aactaaa putative branch site (score: 2)
aaatgttttttgaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagatctaatattcaatatttatctcttttattctctcataaaaaagaccgtctcactctaattctcacaaatgttttttgaactaaaaatgttgcagGTAACAATTGAGGACCATCCTCACTTGCCAGGGAAGCATGCATCTATTCATCCATGTCGACATGGAGCAGTGATGAAGAAAATCATTGATGTGTTGATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - -taaaaaa