Sequence
atgc intronic sequence ATGC exonic sequence...atacaaatatgtatttttctacatagatggtgtatttgggaaaatgtaatttttctttcccaagtcaacttctaaaatacttgtcattctctgtatgtagCTTTTATGCTGCAGAGGTCCTGTTGGCACTTGAATATCTTCACATGCTTGGAGTTGTGTATCGAGACCTTAAACCTGAAAACGTACTGGTCCGAGATGAT
Basic information
species | Glycine max |
transcript | GLYMA09G37810.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G37810.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0021g01540.t01 (Vitis vinifera), 3'ss of exon 2
atacaaatatgtatttttctacatagatggtg-tatttgggaaaatgtaattt--ttctttcccaagtcaacttctaa--aatacttgtcattct-ctgtatgtagCTTTTATGCTGCAGAGGTCCTGTTGGCACTTGAATATCTTCACATGCTTGGAGTTGTGTATCGAGACCTTAAACCTGAAAACGTACTGGTCCGAGATGAT
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------tcccactttttaaaaccttagtcatactgttttcaactttttcatttcgttgtttttcaagcaaagcagtaatgatcaatgtttatactattgcctgcagGTTTTATGCTGCAGAGGTTCTATTAGCACTTGAGTATCTCCACATGCTTGGAGTTGTCTACCGGGATTTGAAACCAGAAAATGTTTTAGTCCGTGATGATMapped 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|13181083|gb|BG352423.1|BG352423EST: ACTTTAAGGCAAAGGCAACCTGGGAAACATTTCTCAGAGTATGCTGCACG CTTTTATGCTGCAGAGGTCCTGTTGGCACTTGAATATCTTCACATGCTTGG
genomic: ACTTTAAGGCAAAGGCAACCTGGGAAACATTTCTCAGAGTATGCTGCACGgtatgtttgt ... ctgtatgtagCTTTTATGCTGCAGAGGTCCTGTTGGCACTTGAATATCTTCACATGCTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaatttttctttcccaagtcaacttctaaaatacttgtcattctctgtatgtagCTTTTATGCTGCAGAGGTCCTGTTGGCACTTGAATATCTTCACATGCTTGGAGTTGTGTATCGAGACCTTAAACCTGAAAACGTACTGGTCCGAGATGAT
ttctaaa putative branch site (score: 2)
tcattctct putative PPT
ttctaaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atacaaatatgtatttttctacatagatggtgtatttgggaaaatgtaatttttctttcccaagtcaacttctaaaatacttgtcattctctgtatgtagCTTTTATGCTGCAGAGGTCCTGTTGGCACTTGAATATCTTCACATGCTTGGAGTTGTGTATCGAGACCTTAAACCTGAAAACGTACTGGTCCGAGATGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - -gatggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caacttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtcattc