Sequence
atgc intronic sequence ATGC exonic sequenceTACTTCATCATCACTATTAGTTACTTCAGCAAGTAATGCATCTGATGCTAGGAGCAACATGATTGGTGAAATTGAGAATAGATCATCATTCCTCCTAGCTgtatgttgaagcctccatctatttttgttattttttctcattttaagactcaagtctagacacatttttgaaaaatatttctcctctgtctaacaatcag
Basic information
species | Glycine max |
transcript | GLYMA02G11260.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G11260.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os11g01439.2 (Oryza sativa), 5'ss of exon 3
-TACTTCATCATCACTATTAGTTACTTCAGCAAGTAATGCATCTGATGCTAGGAGCAACATGATTGGTGAAATTGAGAATAGATCATCATTCCTCCTAGCTgtatgtt---------gaagcctccatc------tatttttgttatt---ttttctcattttaagactcaagtctagacacatttttg-aaaaatatttctcctctgtctaacaatcag----------
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GAAGGACACAACTTCTCTGGGAT-CAACAACATCAAGTGCCTTTGATGTGAGAAGCAACATGATTGGAGAGATTGAGAATAGATCAACATTCCTCTTAGCTgtaagttattcaagatgatgcttcctttcagaaatatatatactaccgaattcccttagtccattagt--aattcaggtagattattatgaggactgactttttatataaaaaaatggatttgtttcag
upper sequence: GLYMA02G11260.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os12g01449.1 (Oryza sativa), 5'ss of exon 4
-TACTTCATCATCACTATTAGTTACTTCAGCAAGTAATGCATCTGATGCTAGGAGCAACATGATTGGTGAAATTGAGAATAGATCATCATTCCTCCTAGCTgtatgttg---aag----------cctccatctatttttgttattttttctcattttaagact-caagtctagacacatttttg-aaaaatatttctcctctgtctaacaatcag----------
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GAAGGACACAACTTCTCTGGGAT-CAACAACATCAAGTGTCTCTGATGTGAGAAGCAACATGATTGGAGAGATTGAGAATAGATCAACATTCCTCTTAGCTgtaagttattcaagatgatgctacctttcagaaatatatactactgaattcctttagtccactgctaattcaggtagattattatgaggacttactttttatataaaaaaatggatttgtttcag
upper sequence: GLYMA02G11260.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G396927_T01 (Zea mays), 5'ss of exon 1
TACTTCATCATCACTATTAGTTACTTCAGCAAGTAATGCATCTGATGCTAGGAGCAACATGATTGGTGAAATTGAGAATAGATCATCATTCCTCCTAGCTgtatgt------tgaagcctccatctatttttgttattttttctcattttaagactcaagtctagacacatttttgaaaaatatttctcctctgtctaacaat-cag-------------------------------------
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-------------------------ATGTCATCCAATGTTTATGATGCCAGAAGTAACATGATTGGAGAGATCGAGAACAGATCAACATTCCTCTTAGCTgtaagtattttttgccggcaccacctggcacaagaatcctgccaaatttatgagttccactattaatacataatt-ataactagtaaccaaat-tttaataatgcaaagtgacaaatgttttataaaaacatggaatgctccag
upper sequence: GLYMA02G11260.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv01s0011g02860.t01 (Vitis vinifera), 5'ss of exon 4
-TACTTCATCATCACTATTAGTTACTTCAGCAAGTAATGCATCTGATGCTAGGAGCAACATGATTGGTGAAATTGAGAATAGATCATCATTCCTCCTAGCTgtatgttgaagcctccatctatttttgttattttttctcattttaagactcaagtctaga---cacatttttgaaaaatatttctcctctgtctaac--aatcag
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GAAGGACA-CACCATCTTTGGTCTCTTCAACATCTAATGCAGCAGATGCCAGGAGCAACATGATTGGTGAAATTGCAAACAAATCATCATTCCTTTTAGCTgtacgttaaattttcc-catacatccatttatcttctcaggcaggttgtttgggtgttcatttctcaaatttaacaaatattgaaactggatggactggaaccagMapped 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|13791699|gb|BG654290.1|BG654290EST: GGAGCAACATGATTGGTGAAATTGAGAATAGATCATCATTCCTCCTAGCT GTGAAAGCTGATGTAGAAACACAAGGTGATTTTGTCATGTCCTTGGCAGCT
genomic: GGAGCAACATGATTGGTGAAATTGAGAATAGATCATCATTCCTCCTAGCTgtatgttgaa ... taacaatcagGTGAAAGCTGATGTAGAAACACAAGGTGATTTTGTCATGTCCTTGGCAGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TACTTCATCATCACTATTAGTTACTTCAGCAAGTAATGCATCTGATGCTAGGAGCAACATGATTGGTGAAATTGAGAATAGATCATCATTCCTCCTAGCTgtatgttgaagcctccatctatttttgttattttttctcattttaagactcaagtctagacacatttttgaaaaatatttctcctctgtctaacaatcag
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA