Sequence
atgc intronic sequence ATGC exonic sequence...agtgggttaattttctttagttggttattgtcattgttaacttagttctgaatgtatatagctgtggtttatgctgttgactgctctcttgtgtggtcagGTCAAATTTATTCAGTAAATGATGCACGATATTTTGACTGGCCTGAAGGTTTAAGGCAATATATAGACACTGTTAGACAAGGGAAAGGTAGATACCCCAA
Basic information
species | Glycine max |
transcript | GLYMA08G07200.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G07200.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv03s0038g00370.t01 (Vitis vinifera), 3'ss of exon 2
-------agtgggttaattttctttagttggttattgtcattgttaacttagttctgaatgtatatagctgtggtttatgctgttgactgctctcttgtgtggtcagGTCAAATTTATTCAGTAAATGATGCACGATATTTTGACTGGCCTGAAGGTTTAAGGCAATATATAGACACTGTTAGACAAGGGAAAGGTAGATACCCCAA
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tccatcaaattggtaattatgtgatgacaagttggaattttttttttctt--tttttgtttcttttagctcctgtttatgatgatggcatctgttttgt-----cagGGCAAATCTATTCTGTAAATGATGCACGATATTTTGACTGGCCTCAAGGTTTAAGACAATATATTGACACTGTAAGACAAGGCAAAGGCAAATATCCCAAMapped 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|58021628|gb|CX708369.1|CX708369EST: AACAGGAGACTTTATTCTCACAAATCCAAGCATCAAAATTCCTCCCCGTG GTCAAATTTATTCAGTAAATGATGCACGATATTTTGACTGGCCTGAAGGTT
genomic: AACAGGAGACTTTATTCTCACAAATCCAAGCATCAAAATTCCTCCCCGTGgtaaaatatg ... gtgtggtcagGTCAAATTTATTCAGTAAATGATGCACGATATTTTGACTGGCCTGAAGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgaatgtatatagctgtggtttatgctgttgactgctctcttgtgtggtcagGTCAAATTTATTCAGTAAATGATGCACGATATTTTGACTGGCCTGAAGGTTTAAGGCAATATATAGACACTGTTAGACAAGGGAAAGGTAGATACCCCAA
tgttgac putative branch site (score: 3)
ctctcttgt putative PPT
aatgtatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtgggttaattttctttagttggttattgtcattgttaacttagttctgaatgtatatagctgtggtttatgctgttgactgctctcttgtgtggtcagGTCAAATTTATTCAGTAAATGATGCACGATATTTTGACTGGCCTGAAGGTTTAAGGCAATATATAGACACTGTTAGACAAGGGAAAGGTAGATACCCCAA
-gtgggtt
- - - - - - - - - -gttggtt
- - - - - - - - - - - - - - - - - - - - - - - - -gaatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgtt