Sequence
atgc intronic sequence ATGC exonic sequence...gaattttgttatttatgaattggccagaagttcttaccttaaaactgtcaatgtaatttggttcattggttatttatatgttcttttgtgccactgtcagTCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCACCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
Basic information
species | Glycine max |
transcript | GLYMA07G12660.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G12660.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g03540.1 (Oryza sativa), 3'ss of exon 4
gaattttgttatttatgaattggccagaagttcttaccttaaaactgtcaatgtaatttggttcattggttatttatatgttcttttgtgccactgtcagTCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCACCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
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gtatgcactgatgcatg--ttgactgataactgcttgcatgtgatttcatttatgattataact-ttgtctttctttttgattctttgatctgtca--agCCTGTGATTCTTGATTACCTCGCCAGCAAGACAATATGTTCAGATGACCTGGTGGTGGTGTCTCCGGATGTTGGAGGTGTTGCCAGGGCACGTGCTTTTG
upper sequence: GLYMA07G12660.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G038791_T01 (Zea mays), 3'ss of exon 4
-----------gaattttgttattta--tgaattgg---ccagaagttcttaccttaaaactgtcaatgtaatttggttcattggttatttatatgttcttttgtgccactgtcagTCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCACCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
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gtatatgtactgaagcatgctacttaaatctattaattcctttaagacttagtgtttatgatggtattcatccttcttataattgttttctatttttcctgtttgatccgtga-agCCTGTTATTCTTGATTATCTCGCCAGCAAGACAATATGTTCAGATGACTTGGTAGTTGTATCTCCTGATGTTGGAGGTGTTGCCAGGGCACGTGCCTTTG
upper sequence: GLYMA07G12660.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0021g00460.t01 (Vitis vinifera), 3'ss of exon 4
-gaattttgttatttatgaattggccagaagttcttaccttaaaactgtcaatgt-aatttggttcattggttatttatatgttcttt-tgtgccactgtcagTCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCACCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
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ctggatttatactttacagatatatt---gttttctgccatgacttgtttaaccttaatttggtttattgatccatgaacttttgtttgtttgtccacgctagCCTGTGATACTTGATTATCTTGCAAGCAAAACTATTTGTTCTGATGATTTGATAGTGGTCTCACCGGATGTTGGTGGAGTTGCTAGAGCGCGTGCTTTTGMapped 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|254348826|gb|GR852505.1|GR852505EST: GGCAGTCCATGGGCTATTT-GATATTCCAGTTGATCATGTGTATGGACAG TCTGTTATACTTGATTACCTTGCCAGCAA
genomic: GGCAGTCCATGGGCTATTTTGATATTCCAGTTGATCATGTGTATGGACAGgtaacagatg ... ccactgtcagTCTGTTATACTTGATTACCTTGCCAGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcaatgtaatttggttcattggttatttatatgttcttttgtgccactgtcagTCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCACCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
ttatttatatgttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaattttgttatttatgaattggccagaagttcttaccttaaaactgtcaatgtaatttggttcattggttatttatatgttcttttgtgccactgtcagTCTGTTATACTTGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGGTAGTTGTCTCACCAGATGTTGGTGGTGTTGCCAGAGCACGTGCTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - -actgtca