Sequence
atgc intronic sequence ATGC exonic sequenceAAGAAGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACTGATGGAACTGTCCATCCTTTGACAAGCTATGTGATTAACTATGTGAAGTTTTTATTTGAgtaagttcatatgtgctgtattctgcttcaaattctcaaccacacccatgaagttatctctagcattgtatattgttttcattggtgaaaaagctgcatc...
Basic information
species | Glycine max |
transcript | GLYMA20G17500.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G17500.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os11g05880.1 (Oryza sativa), 5'ss of exon 7
AAGAAGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACTGATGGAACTGTCCATCCTTTGACAAGCTATGTGATTAACTATGTGAAGTTTTTATTTGAgtaagttcatatgtgctgtattctgcttcaaattctcaaccacacccatgaagttatctctagcatt-gtatattgttttcattggtgaaaaagctgcatc
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AGGAGGCTGTTGAAAAGGATGCTTCGAAGACTATTGTTAATGATGGAACTGTGCATCCTTTGACTAGCTATGTGATTAATTATGTTAAATTCTTATTTGAgtaagtactcacttttaacttagta-ttcaaattcatggacatgtagattcgtaaatcactacaatttgagtgaggtatggtacaatgatcgcgatgagta
upper sequence: GLYMA20G17500.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os04g58880.1 (Oryza sativa), 5'ss of exon 7
AAGAAGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACTGATGGAACTGTCCATCCTTTGACAAGCTATGTGATTAACTATGTGAAGTTTTTATTTGAgtaagt------tcatatgtgctgtattctgcttcaaattctcaaccacacccatgaagttatctctagcattgtatatt-gttttcattggtgaaaaagctgcatc
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AAGAAGCTGTTGAAAAGGACGCAACAAAGAATATTCATATTGATGGGACAGTGCATCCTTTGACGAGCTACGTGATTAACTATGTCAAATTTTTATTTGAgtaagtatatgatcatgtgcacttaatctttcctgtaattt--gatagttgcattgctatactttcttgcatttcttcttcaatcctatccaccagtatgct-----
upper sequence: GLYMA20G17500.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os12g06270.1 (Oryza sativa), 5'ss of exon 7
AAGAAGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACTGATGGAACTGTCCATCCTTTGACAAGCTATGTGATTAACTATGTGAAGTTTTTATTTGAgtaagt-tcatatgtgctgtattctgcttcaaattctcaacc-acacccatgaagttatctctagca-ttgtatattgttttcattggtgaaaaagctgcatc
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AGGAGGCAGTTGAAAAGGATACTTCCAAGACTATTGTGCAGGATGGGACGGTCCATCCTTTGACTAGCTATGTTATTAATTATGTCAAATTTCTATTTGAgtaagtatcactattaccacattcttggacatgtagaagatttgtgtgactgtagtaactagttgcaatcacaaatagttttaacacatatcttcga-gta--
upper sequence: GLYMA20G17500.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G074530_T01 (Zea mays), 5'ss of exon 1
AAGAAGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACTGATGGAACTGTCCATCCTTTGACAAGCTATGTGATTAACTATGTGAAGTTTTTATTTGAgtaagt------tcatatgtgc-tgtattctgcttcaaattctcaac---cacacccatga-agttatctctagcattgtatattgttttcattggtgaaaaagctgcatc
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AAGAAGCTGTTGAAAAGGATGCAACAAAGAATATTCATACTGATGGAACAGTTCATCCTTTAACAAGCTATGTGATCAACTATGTTAAGTTTTTGTTTGAgtaagtatctaatcaaatccgcatgcaatttatgtgttgttataaatgaataggtgtacaagatttgtccttatccatgtgcctttccttttctaattat-----------
upper sequence: GLYMA20G17500.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G03540.3 (Arabidopsis thaliana), 5'ss of exon 8
AAGAAGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACTGATGGAACTGTCCATCCTTTGACAAGCTATGTGATTAACTATGTGAAGTTTTTATTTGAgtaagt---tcatatgtgctgtattc--tgcttcaaattctcaac--------cacacccatgaagttatctctagcattgtatatt-----gttttcattggtgaaaaagctgcatc--
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AAGAAGCTGTTGAGAAAGATGCTACAAAGACTGCTGTTCTAGATGGAACTGTCCACCCACTAACAAGCTATGTCATCAATTATGTCAAGTTTTTATTCGAgtaagtacatcatatatactcaacttatttcctcgaactatttgcgtattgttcttctccatactgctatttgc-gtattgtccctttccacgctttaattgatgatcat-tggtgtcag
upper sequence: GLYMA20G17500.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv13s0073g00170.t01 (Vitis vinifera), 5'ss of exon 7
AAGAAGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACTGATGGAACTGTCCATCCTTTGACAAGCTATGTGATTAACTATGTGAAGTTTTTATTTGAgtaagttcatatg-------tgctgtattct-gcttcaaattctcaaccacacccatgaagttatctctagcattgtatattgttttcattggtgaaaaagctgcatc
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AAGAAGCAGTTGAAAAAGATGCAACAAAAACTGCTGTGTCTGATGGAACTGTTCATCCTTTGACAAGCTATGTGATCAACTATGTGAAGTTTCTTTTTGAgtaagcccctctgactgtgttgctatcttctagctccattcttttgggca-agacagataacagtttcatccatgcta-attggtggtatttctattagggt------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|10847570|gb|BF071573.1|BF071573EST: GTCCATCCTTTGACAAGCTATGTGATTAACTATGTGAAGTTTTTATTTGA CTATCGATCTACCTTACACCAACTTTTCCAAGGAATTGAAGGTGATTCTTC
genomic: GTCCATCCTTTGACAAGCTATGTGATTAACTATGTGAAGTTTTTATTTGAgtaagttcat ... atatttgcagCTATCGATCTACCTTACACCAACTTTTCCAAGGAATTGAAGGTGATTCTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGAAGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACTGATGGAACTGTCCATCCTTTGACAAGCTATGTGATTAACTATGTGAAGTTTTTATTTGAgtaagttcatatgtgctgtattctgcttcaaattctcaaccacacccatgaagttatctctagcattgtatattgttttcattggtgaaaaagctgcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacaccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaaagc