Sequence
atgc intronic sequence ATGC exonic sequenceCTTTTGGATGATTGTGCTGTAAAGCAGCTCTTGATTGATGGAACCTTAGCTGGATGTGCTTTGGATGGGGCAGAAGGGCCTCAATGGATGGAAGCATGGGtacggtaaatttaggtttttaattctttaatttacaaggtatgatgcaggcaatcacaaatgtctaaactactgattcattcacgacttactgttccttt...
Basic information
species | Glycine max |
transcript | GLYMA18G47240.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G47240.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g03460.1 (Oryza sativa), 5'ss of exon 2
-CTTTTGGATGATTGTGCTGTAAAGCAGCTCTTGATTGATGGAACCTTAGCTGGATGTGCTTTGGATGGGGCAGAAGGGCCTCAATGGATGGAAGCATGGGtacggtaaatttaggttttta---attctttaatttacaaggtatga--tgcaggcaatcacaaatgtctaaactactgattcattcacgacttactgttccttt
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ACTTATAGATGATTGTGCACTCAAACAGCTATTGATTGATGGTACAATAGCTGGTTGTGCATTGGATGGTGCTGAAGGTCCACAATGGATGGAAGCGTGGgtacgtcca--tcagcttttgatgtgtttttttgttgataagtggccatttgcgatggatgaaattcatctaag--atcaaaacat-caccatttagaatgctct-
upper sequence: GLYMA18G47240.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os10g38900.1 (Oryza sativa), 5'ss of exon 3
-CTTTTGGATGATTGTGCTGTAAAGCAGCTCTTGATTGATGGAACCTTAGCTGGATGTGCTTTGGATGGGGCAGAAGGGCCTCAATGGATGGAAGCATGGGtacggtaaatttaggtttttaattctttaatttacaaggtatgatgcaggcaatcacaaatgtctaaactactgatt-cattcacgacttactgttccttt-----
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ACTGATAGATGACTGTGCACTCAAACAACTCTTAATTGATGGCACTATAGCTGGGTGCGCATTGGATGGTGCTGAAGGTCCACAATGGATGGAAGCATGGgtatgg--aactcagggcacaa----ttgaatttgagtcaaatgggatttgagatta-aaacaaccaaaatgctatctgtggtcaagcgacatcattctaaagaatg
upper sequence: GLYMA18G47240.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G476107_T02 (Zea mays), 5'ss of exon 4
-CTTTTGGATGATTGTGCTGTAAAGCAGCTCTTGATTGATGGAACCTTAGCTGGATGTGCTTTGGATGGGGCAGAAGGGCCTCAATGGATGGAAGCATGGGtacggtaaatttaggtttttaattctttaat--ttacaaggtatgatgcagg-caatcacaaatgtctaaactactgattcattcacgacttactgttccttt
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GCTTATAGATGACTGTGCTCTCAAACAGCTCTTGATTGATGGTACCATAGCTGGTTGCGCATTGGATGGTGCTGAAGGTCCACAGTGGATGGAAGCATGGgtatgcaaattagaagcagaatattaaacaatgtttgtaaatggtcatttaggatcaataaatctatctaaaat-caaactcaattaaggttctctctgaa---
upper sequence: GLYMA18G47240.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv15s0046g02250.t01 (Vitis vinifera), 5'ss of exon 3
-CTTTTGGATGATTGTGCTGTAAAGCAGCTCTTGATTGATGGAACCTTAGCTGGATGTGCTTTGGATGGGGCAGAAGGGCCTCAATGGATGGAAGCATGGGtacggtaa---atttaggtttttaattctttaatttacaaggtatgatgcaggcaatcacaaatgtctaaac-tactgattcattcacgacttactgttccttt
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GCTGCTGGATGATTGTGCTCTGAAGCAGCTGTTGATTGACGGCACCATTGCTGGCTGTGCTCTGGATGGTGCTGAAGGGCCGCAATGGATGGAAGCATGGgtatgatgactagttttagggtatgaatatttaat--aataggtatcattattattattat--ttggataagcatggagaacaaggtattaaaaagtgccaaaa-Mapped 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|254332893|gb|GR850143.1|GR850143EST: TGGATGTGCTTTGGATGGGGCAGAAGGGCCTCAATGGATGGAAGCATGGG TGAAGGAGATGCCTAACGTATTGATACTTCCCCAAAGTGCAGATTACAGTG
genomic: TGGATGTGCTTTGGATGGGGCAGAAGGGCCTCAATGGATGGAAGCATGGGtacggtaaat ... ctgcatcaggTGAAGGAGATGCCTAACGTATTGATACTTCCCCAAAGTGCAGATTACAGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTTTGGATGATTGTGCTGTAAAGCAGCTCTTGATTGATGGAACCTTAGCTGGATGTGCTTTGGATGGGGCAGAAGGGCCTCAATGGATGGAAGCATGGGtacggtaaatttaggtttttaattctttaatttacaaggtatgatgcaggcaatcacaaatgtctaaactactgattcattcacgacttactgttccttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG