Sequence
atgc intronic sequence ATGC exonic sequence...ttccttgcacgtgcttaaatagccagaatattggcctttgatttggacgaattattcttcttgttgtattgattcctttttgtccttatctgttttatagGGAGGGAAAATTCGTGATTTACTCTTTCAAATTCTAGAAAATGAAAAGGATGTCATAATAAAGCATGGAGCACAATCCAGAGAGAGTCGGCGGGCAGCTT
Basic information
species | Glycine max |
transcript | GLYMA20G02340.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G02340.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g01600.t01 (Vitis vinifera), 3'ss of exon 1
-ttccttgcacgtgcttaaatagccagaatattggcctttgatttg-gacgaattattcttcttgttgtattgattcctttttgtccttatctgttttatagGGAGGGAAAATTCGTGATTTACTCTTTCAAATTCTAGAAAATGAAAAGGATGTCATAATAAAGCATGGAGCACAATCCAGAGAGAGTCGGCGGGCAGCTT
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attatacggggacattcctgcttttagggtcttttttttttttttttgatagattgcttttaaggtc-tattttaaaatttaaatgcttctctattt-gtagGGAGGAAAAATCCGGGACTTGCTTTTCCAAATACTTGAACAAGAAGAGGATGTTATAATAAAACATGGTGCACAATCCAGAGAGAGTCGACGTATGGCTTMapped 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|298167707|gb|HO012970.1|HO012970EST: AAGATCGTAAAACCTTGTTGTCTTTCATGGGGAATCGGTACCGGAAAGAG GGAGGGAAAATTCGTGA
genomic: AAGATCGTAAAACCTTGTTGTTTTTCATGGGGAATCGGTACCGGAAAGAGgtattgtatt ... tgttttatagGGAGGGAAAATTCGTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacgaattattcttcttgttgtattgattcctttttgtccttatctgttttatagGGAGGGAAAATTCGTGATTTACTCTTTCAAATTCTAGAAAATGAAAAGGATGTCATAATAAAGCATGGAGCACAATCCAGAGAGAGTCGGCGGGCAGCTT
tattgat putative branch site (score: 3)
ttcctttttgtcctta CT-rich tract
ttatctgttttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttccttgcacgtgcttaaatagccagaatattggcctttgatttggacgaattattcttcttgttgtattgattcctttttgtccttatctgttttatagGGAGGGAAAATTCGTGATTTACTCTTTCAAATTCTAGAAAATGAAAAGGATGTCATAATAAAGCATGGAGCACAATCCAGAGAGAGTCGGCGGGCAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- ccttgca
- - - - - gtgctta
- - - - - - - - - - - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgttg