Sequence
atgc intronic sequence ATGC exonic sequencegttgtgtgcaactttatcagttaacatttttttttcttgattattcttattttttacagtcactcacgtagattctttccatacacttgaaatctaaaacctttgttgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCAATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
Basic information
species | Glycine max |
transcript | GLYMA20G30980.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G30980.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g08700.3 (Oryza sativa), 3'ss of exon 11
gttgtgtgcaactttatcagttaacatttttttttcttg-attattcttattttttacagtcactcacgtagattctttccatacacttgaaatctaaaacctttgttgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCAATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
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---------------caaagttggaatttgattatgtcgtaaaatatatgcaccctacatgttttagcttcatattgacttatat-tttcatatgtgctccttcaactgcacaa-agCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATTGCTTCCATGCTATGTGCTCATGGTCCCGATGTTGAGTGGAGAATATGTA
upper sequence: GLYMA20G30980.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G22770.1 (Arabidopsis thaliana), 3'ss of exon 9
gttgtgtgcaactttatcagttaacatttttttttcttgattattcttattttttacagtcactcacgtagattctttccatacacttgaaatctaaaacctttgttgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCAATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
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-------gcatggtt-cctctttatatttttctgctattccatctctgatatgcgattggcattctactagaaaatt---ata---ttgaaa-ctgactcatttcatctcaa-cagATAGAAGTTCCTGCAGCAGAAGCAACCATTGAAGCCACTGCCCAAGGAATTGCCTCAATGCTTTGTGCTCATGGTCCTGAAGTTGAGTGGAGAATTTGCA
upper sequence: GLYMA20G30980.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 11
------------------------------------------------------gttgtgtgcaactttatcagttaa-------catttttttttcttga----ttattcttattttttacagtcactcacgtagattctt-tccatacacttgaa--atctaaaacc-tttg--------------ttgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCAATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
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gtattagtgacttgctttcattgtttgtgtccaactaatttattctttgggatgaatgcctccagtttttggagtgcagatcatgcattcatctaccttaacctgttattttacacacacacacacacacacacagatgcatatgcaaacatatgtataacctaacttcgtttgaaaaaaaaaaaatccctcttgccagATAGAAGTGCCTGCAACTGAAGCAACTATTGAAGCCACTGCCCAAGGGATTGCATCAATGCTTTGTGCACATGGTCCCGAGGTTGAATGGAGAATTTGCAMapped 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|254348962|gb|GR860234.1|GR860234EST: AAGTTCAACATGAACCTCTGGGTGGTTATATTTCTTCCTATAAAAAGCAG ATAGAAGTTCCTGCAGCTGAAGCCTCAATTGAAGCTACTGCCCAAGGCATT
genomic: AAGTTCAACATGAACCTCTGGGTGGTTATATTTCTTCCTATAAAAAGCAGgttgtgtgca ... tgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCAATTGAAGCTACTGCCCAAGGCATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actcacgtagattctttccatacacttgaaatctaaaacctttgttgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCAATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
cctttgtt CT-rich tract
aaatctaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtgtgcaactttatcagttaacatttttttttcttgattattcttattttttacagtcactcacgtagattctttccatacacttgaaatctaaaacctttgttgttgatcagATAGAAGTTCCTGCAGCTGAAGCCTCAATTGAAGCTACTGCCCAAGGCATTGCATCAATGCTTTGTGCCCATGGTCCAGAGGTTGAATGGAGAATTTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA