Sequence
atgc intronic sequence ATGC exonic sequencegtataaccctatttccctcttttctccttatttagggtttgagttttctgttttacatttttgttttcttgttaatagggttaatcatcggaatattgaaatatatggaatgcaagggttaatcatccacgtccttttcacaacaaattgttgagattttccctttttattctttctcagGGTACCCAACGCAAAACCTGGCAGAGAGAGTACGGATATTGAAATATATGGAATGCAAGGGATTCCACCAGATATCTTGGCTGCTCATTACGGTGAAGAA
Basic information
species | Glycine max |
transcript | GLYMA08G05390.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G05390.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G30970.1 (Arabidopsis thaliana), 3'ss of exon 1
gtataaccctatttccctcttttctccttatttagggtttgagttttctgttttacatttttgttttcttgttaatagggttaatcatcggaatattgaaatatatggaatgcaagggttaatcatccacgtccttttcacaacaaattgttgagattttccctttttattctttctcagGGTACCCAACGCAAAACCTGGCAGAGAGAGTACGGATATTGAAATATATGGAATGCAAGGGATTCCACCAGATATCTTGGCTGCTCATTACGGTGAAGAA
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-------------------------------------------------------------------cttggaatttgtggtactgttcaatgtgttt--gcctgttgaatttggaatttgat--------tccatgacactactaact-ttgaaattatctacaatt--ttcacaccagAGTTCCTAATGCTAAAGACGGTCGAGATTCAACTGATATTGAAATATATGGAATGCAAGGAATTCCACCCCATGTCTTGACTGCTCATTATGGAGAAGAA
upper sequence: GLYMA08G05390.2 (Glycine max), 3'ss of exon 1
lower sequence: AT1G30970.1 (Arabidopsis thaliana), 3'ss of exon 1
gtataaccctatttccctcttttctccttatttagggtttgagttttctgttttacatttttgttttcttgttaatagggttaatcatcggaatattgaaatatatggaatgcaagggttaatcatccacgtccttttcacaacaaattgttgagattttccctttttattctttctcagGGTACCCAACGCAAAACCTGGCAGAGAGAGTACGGATATTGAAATATATGGAATGCAAGGGATTCCACCAGATATCTTGGCTGCTCATTACGGTGAAGAA
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-------------------------------------------------------------------cttggaatttgtggtactgttcaatgtgttt--gcctgttgaatttggaatttgat--------tccatgacactactaact-ttgaaattatctacaatt--ttcacaccagAGTTCCTAATGCTAAAGACGGTCGAGATTCAACTGATATTGAAATATATGGAATGCAAGGAATTCCACCCCATGTCTTGACTGCTCATTATGGAGAAGAA
upper sequence: GLYMA08G05390.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0011g01240.t01 (Vitis vinifera), 3'ss of exon 1
gtataaccctatttccctcttttctccttatttagggtttgagttttctgttttacatttttgttttcttgttaatagggttaatcatcggaatattgaaatatatggaatgcaagggttaatcatccacgtccttttcacaacaaattgttgagattttccctttttattctttctcagGGTACCCAACGCAAAACCTGGCAGAGAGAGTACGGATATTGAAATATATGGAATGCAAGGGATTCCACCAGATATCTTGGCTGCTCATTACGGTGAAGAA
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-------------------------------------------------------------------------gatattggcacttgttctaatgtcctttttaatgctatactgtttctcataatg-atgttttcatttgtactaattctctgtagataca------actcctttacagGGTTCCCAATGCAAAACCTGGCCGCGAGTCAACCGAAATTGAAATATATGGAATGGAAGGAATCCCACATGAAATCTTAGCAGCTCATTATGGAGAGGAAMapped 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|16996888|gb|BM086260.1|BM086260EST: GGCGGCATGGCCATCCACGTCCTCCAGGTCCACAAGGAATCCGTCACCAA GGTACCCAACGCAAAACCTGGCAGAGAGAGTACGGATATTGAAATATATGG
genomic: GGCGGCATGGCCATCCACGTCCTCCAGGTCCACAAGGAATCCGTCACCAAgtataaccct ... tctttctcagGGTACCCAACGCAAAACCTGGCAGAGAGAGTACGGATATTGAAATATATGG
EST:
gi|254345519|gb|GR851681.1|GR851681EST: GGCGGCATGGCCATCCACGTCCTCCAGGTCCACAAGGAATCCGTCACCAA GGTACCCAACGCAAAACCTGGCAGAGAGAGTACGGATATTGAAATATATGG
genomic: GGCGGCATGGCCATCCACGTCCTCCAGGTCCACAAGGAATCCGTCACCAAgtataaccct ... tctttctcagGGTACCCAACGCAAAACCTGGCAGAGAGAGTACGGATATTGAAATATATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccacgtccttttcacaacaaattgttgagattttccctttttattctttctcagGGTACCCAACGCAAAACCTGGCAGAGAGAGTACGGATATTGAAATATATGGAATGCAAGGGATTCCACCAGATATCTTGGCTGCTCATTACGGTGAAGAA
ttttccctttttattc CT-rich tract
tttttattctttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataaccctatttccctcttttctccttatttagggtttgagttttctgttttacatttttgttttcttgttaatagggttaatcatcggaatattgaaatatatggaatgcaagggttaatcatccacgtccttttcacaacaaattgttgagattttccctttttattctttctcagGGTACCCAACGCAAAACCTGGCAGAGAGAGTACGGATATTGAAATATATGGAATGCAAGGGATTCCACCAGATATCTTGGCTGCTCATTACGGTGAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA