Sequence
atgc intronic sequence ATGC exonic sequence...acatctgcatcattccccttttaagattctgttttattatgctttacgttttaaatgttaaccagtatttacaagttgcatgccatgaatgtgaatacagGAATATGGGCAATATTGAGGAACAATGAGATGCTTACATGGCCAGAGAAAGTAAAATTTGCAATTGGGCTTCTCCCAGCTATGCTTGGCGGACAGCCATA
Basic information
species | Glycine max |
transcript | GLYMA18G00720.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g08570.1 (Oryza sativa), 3'ss of exon 6
acatctgcatcattccccttttaagattctgttttattatgcttt-acgtt-ttaaatgttaaccagtatttacaagttgcatgccatgaatgtgaata-cagGAATATGGGCAATATTGAGGAACAATGAGATGCTTACATGGCCAGAGAAAGTAAAATTTGCAATTGGGCTTCTCCCAGCTATGCTTGGCGGACAGCCATA
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---gcaacgttaatgatagatcaatagatcatgccatggagcttttatgttgtcaattgatgcctatttattatttatcattgatcatgcgtgcatttaacagGAATATGGGCCATACTAAGAAACAATGAAATGCTAACTTGGCCAGAGAAGGTGAAGTTTGCTCTTGGACTTTTGCCAGCAATGGTTGGTGGCCAAGCTTA
upper sequence: GLYMA18G00720.2 (Glycine max), 3'ss of exon 1
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 6
acatctgcatcattccccttttaagattctgttttattatgctttacgtt-ttaaatgttaaccagtatttacaagttgcatgccatgaatgtgaat-acagGAATATGGGCAATATTGAGGAACAATGAGATGCTTACATGGCCAGAGAAAGTAAAATTTGCAATTGGGCTTCTCCCAGCTATGCTTGGCGGACAGCCATA
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ac-tgaactccgttgtagcattagcgctgaaatgttctgtggttgaattaatttgtttctggcaaataatta-aagttgttgctgttggatttacgttgtagGTATTTGGGCTATTTTGCGGAACAACGAGATGCTGACATGGCCAGAGAAAATAAAGTTTGCTATTGGACTTTTGCCAGCCATGGTCGGCGGTCAGGCTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acgttttaaatgttaaccagtatttacaagttgcatgccatgaatgtgaatacagGAATATGGGCAATATTGAGGAACAATGAGATGCTTACATGGCCAGAGAAAGTAAAATTTGCAATTGGGCTTCTCCCAGCTATGCTTGGCGGACAGCCATA
tgttaac putative branch site (score: 2)
ttaaatgttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acatctgcatcattccccttttaagattctgttttattatgctttacgttttaaatgttaaccagtatttacaagttgcatgccatgaatgtgaatacagGAATATGGGCAATATTGAGGAACAATGAGATGCTTACATGGCCAGAGAAAGTAAAATTTGCAATTGGGCTTCTCCCAGCTATGCTTGGCGGACAGCCATA
-catctgc
- - - - - - ttcccct
- - - - - - - - - - - - gattctg
- - - - - - - - - - - - - - - - - - -tatgctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgcca