Sequence
atgc intronic sequence ATGC exonic sequence...tttcttttgaagggagttatcccaatgcatatctctctgttcttcccttttcttataacgtaaaggaatcatcattacttatactttcttccttgatcagAGCCTGGAAAGCTCATAACATGGGGTTCAACAGATGATTTAGGCCAAAGCTATGTTACATCTGGCAAACATGGG
Basic information
species | Glycine max |
transcript | GLYMA18G03870.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G03870.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G55580.1 (Arabidopsis thaliana), 3'ss of exon 1
------------tttcttttgaagggagtt----atcccaatgcatatctctctgttcttcccttttcttataacgtaaaggaatcatca----ttacttatactttcttccttgat-cagAGCCTGGAAAGCTCATAACATGGGGTTCAACAGATGATTTAGGCCAAAGCTATGTTACATCTGGCAAACATGGG
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gtgatagaatgttttcaattgaaaagttcttcacatttcgaatcaatttcataaaatgttatctgatttgaaatcatgagtaattttttgaagttgaatgatatggtttttgttaaaacagAGTCAGGGAAGCTAATTACATGGGGTTCTACAGATGATCTAGGTCAAAGCTACGTCACATCTGGGAAACACGGG
upper sequence: GLYMA18G03870.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0019g02280.t01 (Vitis vinifera), 3'ss of exon 1
tttcttttgaagggagttat-cccaatgcatatctctctgttcttcccttttc-ttataacgtaaaggaatcatcattacttatactttcttccttgatcagAGCCTGGAAAGCTCATAACATGGGGTTCAACAGATGATTTAGGCCAAAGCTATGTTACATCTGGCAAACATGGG
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ttcctttcaacagcagctctactcaatgatttccctgcaattctttcattttaattattttccaaaagttgtgttttttctcatgcttc--tgtttaatcagAGTCTGGAAAGCTCATCACCTGGGGTTCAACGGATGATCTAGGTCAAAGCTATGTGACATCTGGAAAGCATGGGMapped 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|193623508|gb|FK576902.1|FK576902EST: TTGGAAGGATGTCTGCGGCGGTGGTTGTGGATTCGCCATGGCTATCTCTG AGCCTGGAAAGCT
genomic: TTGGAAGGATGTCTGCGGCGGTGGTTGTGGATTCGCCATGGCTATCTCTGgtacctaact ... ccttgatcagAGCCTGGAAAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttttcttataacgtaaaggaatcatcattacttatactttcttccttgatcagAGCCTGGAAAGCTCATAACATGGGGTTCAACAGATGATTTAGGCCAAAGCTATGTTACATCTGGCAAACATGGG
ttataac putative branch site (score: 2)
cttatactttcttcct putative PPT
attacttatacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcttttgaagggagttatcccaatgcatatctctctgttcttcccttttcttataacgtaaaggaatcatcattacttatactttcttccttgatcagAGCCTGGAAAGCTCATAACATGGGGTTCAACAGATGATTTAGGCCAAAGCTATGTTACATCTGGCAAACATGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - cccaatg
- - - - - - - - - - - - - - - - ctctctg