Sequence
atgc intronic sequence ATGC exonic sequencegtaataccagttcgttcatttggtttttaattttaccatcatttgtgttaggaaatttacctatggttgattaatatctgcagTACTTAATGGAATTCAATAGCAGTCCAGGCGACCTGATGGAGCTTTCACCTCTTTTTTCTGATGATAGCCGTGTTGCTGAGGCTGCTTCGATTGCCCAGA
Basic information
species | Glycine max |
transcript | GLYMA07G05160.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G05160.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os12g13590.1 (Oryza sativa), 3'ss of exon 5
-----gtaataccagttcgttcatttggtttttaattttacca-tcatttgtgttaggaaatttacctatggttgattaata-----tctgcagTACTTAATGGAATTCAATAGCAGTCCAGGCGACCTGATGGAGCTTTCACCTCTTTTTTCTGATGATAGCCGTGTTGCTGAGGCTGCTTCGATTGCCCAGA
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gtaatgtagttgcttgacattactaatgttctttcttccaatactttttcatgacccgtgacctcattttaaacaaaatatacttcttttgcagTATCTGATGGAGTTCAACAGCACACCAGGGGATCTTATGGAACTTTCTCCTTTATTTTCTGATGACAGTCGTGTTGCTGAGGCAGCTTCAATTGCACAGA
upper sequence: GLYMA07G05160.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G12370.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaataccagttcgttcatttggttt--ttaattttaccatcatttgtgttaggaaatttacctatggttgattaatatctgcagTACTTAATGGAATTCAATAGCAGTCCAGGCGACCTGATGGAGCTTTCACCTCTTTTTTCTGATGATAGCCGTGTTGCTGAGGCTGCTTCGATTGCCCAGA
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---gtaagtgtgcatctatgttgcaaggttggtcacatatttagttagatgaatgcttaaagtaatccttgttcaacaaatgcagTACCTAATGGAGTTCAACGGCAGCCCAGGGGATCTTATGGAGCTTTCCGCTTTGTTTTCTGATGATAGCCGCGTAGCTGAGGCTGCTTCTATCGCTCAGA
upper sequence: GLYMA07G05160.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 5
gtaataccagttcgttcatttggtttttaattttaccatcatttgtgttaggaaatttacctatggttgattaatatctgcagTACTTAATGGAATTCAATAGCAGTCCAGGCGACCTGATGGAGCTTTCACCTCTTTTTTCTGATGATAGCCGTGTTGCTGAGGCTGCTTCGATTGCCCAGA
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gtattatctatcaagacacataaaattgattaccatttgcata-gaatgagttaatatcactttgttgatttcatctctgcagTACTTGATGGAGTTCAATAGCAGCCCAGGCGACCTGATGGAACTTTCACCTCTATTTTCTGATGATAGTCGTGTTGCTGAGGCTGCTTCAATCGCACAGAMapped 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|254329452|gb|GR839015.1|GR839015EST: GTGCAGATGCTCAGCGAGAAACTGCCAGTCAAACAATTGAATTGATAAAA TACTTAATGGAATTCAATAGCAGTCCAGGCGACCTGATGGAGCTTTCACCT
genomic: GTGCAGATGCTCAGCGAGAAACTGCCAGTCAAACAATTGAATTGATAAAAgtaataccag ... atatctgcagTACTTAATGGAATTCAATAGCAGTCCAGGCGACCTGATGGAGCTTTCACCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattttaccatcatttgtgttaggaaatttacctatggttgattaatatctgcagTACTTAATGGAATTCAATAGCAGTCCAGGCGACCTGATGGAGCTTTCACCTCTTTTTTCTGATGATAGCCGTGTTGCTGAGGCTGCTTCGATTGCCCAGA
gattaat putative branch site (score: 3)
ttgattaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataccagttcgttcatttggtttttaattttaccatcatttgtgttaggaaatttacctatggttgattaatatctgcagTACTTAATGGAATTCAATAGCAGTCCAGGCGACCTGATGGAGCTTTCACCTCTTTTTTCTGATGATAGCCGTGTTGCTGAGGCTGCTTCGATTGCCCAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT