Sequence
atgc intronic sequence ATGC exonic sequenceACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtctagtgcttttttatttaattatcattaagctaaacatagaaactttttaagtagtttatgatttaacgtattactgacatttgagttttattttcttgttttctctatgtgtgataatgatttgatgatcttcttctcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G37750.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA06G05170.1 (Glycine max), 5'ss of exon 5
ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtctagtgcttttttatttaattatcattaagctaaacatagaaactttttaagtagtttatgatttaacgtattactgacatttgagttttattttcttgttttctctatgtgtgataatgatttgatgatcttcttctcag
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GCATAGATGGACTGGTAGGTATGAAGCGCATTTGTGGGATAATAGTTGCAAGAAGGAAGGGCAGACTAGGAAAGGAAGACAAGgt-tagtg------------agaatgaataa--tagttgttgacattttt--attaattttt---tggaagtattattctcctttaaagctttttggtcccaaatctg-acatgtgccgat----------------------
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA04G05080.1 (Glycine max), 5'ss of exon 4
ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtctagtgcttttttatttaattatcattaagctaaacatagaaactttttaagtagtttatgatttaacgtattactgac--atttgagttttattttcttgttttctctatgtgtgataatgatttgatgatcttcttctcag
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GCATAGATGGACTGGTAGGTATGAAGCGCATTTGTGGGATAATAGTTGCAAGAAGGAAGGGCAAACTAGGAAAGGACGACAAGgt-tagtgagaatgaat--aacagtggttgacatttttattaattttttggtagtattctcc-attaaagcttttggtccctaatctgacatgtgcccactaac-----------------------------------------
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA01G40380.1 (Glycine max), 5'ss of exon 2
ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtctagtgcttttttatttaattatcattaagctaaacatagaaactttttaagta-gtttatgatttaacgtat-tactgacatttgagttttattttcttgttt---tctctatgtgtgataatgat-ttgatgatcttcttctcag---------------------------------------------
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GCATAGGTGGACTGGTAGATATGAAGCTCATCTATGGGACAACAGCTGCAAGAAAGAGGGCCAAGGAAGGAAAGGAAGGCAAGgtaagaaagcgactattttcgcacccctttacctttttttct---ttttctgtgtatatttttggtcaaacaaatctattgacttt--aattttgttctcctttgaaaagctctgcatttagtgctgatcttttttttcttcttcttatctttgattcggtgatgattccactcaaacatgggatgaatctcag
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA17G17010.1 (Glycine max), 5'ss of exon 4
ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtct------agtgcttttttatttaattatcattaagctaaacatagaaactttttaagtagtttatgatttaacgtattactgacatttgagttttattttcttgttttctctatgtgtgataatgatttgatgatcttcttctcag
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GCATAGGTGGACTGGGAGATATGAAGCTCATCTTTGGGACAACAGCTGCAAGAAAGAGGGGCAAAGCAGGAAAGGAAGACAAGgtattaagaaaggggctatattctcaatcactttttcttttgttttttc--tcttgtgcattgtct-tggtcaaacatatctatc-tatttgagttccactgtt---------------------------------------------
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA05G22970.1 (Glycine max), 5'ss of exon 5
ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgt-------------------ctagtgcttttttatttaattatca-ttaagc-taaacatagaaactttttaagtagtttatgatttaacgtattactgacatttgagttt---tattttcttgttttctctatgtgtgataatgatttgatgatctt-cttctcag--------------------------------
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GCATAGGTGGACTGGGAGATATGAAGCTCATCTTTGGGACAACAGCTGCAAGAAAGAGGGGCAAAGCAGGAAAGGAAGACAAGgtaagaaagggactatattccccatcactttttcttttgtttttctcttgtgcatatttttggtcaagcatctatctatttgagttccaatgttcctttgtagcaaagatctgcattttttttagtcatcact-cattcttttttggttttataactttgcgttgcggggaatgccaccgaaatatacgatgaatctcag
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA0041S00200.1 (Glycine max), 5'ss of exon 6
ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtctagtgcttttttatttaattatcattaagctaaacatagaaactttttaagtagtttatgatttaacgtattactgacatttgagttttattttcttgttttctctatgtgtgataatgatttgatgatcttcttctcag
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GCATAGATGGACTGGTAGATATGAAGCACATTTGTGGGATAACAGTTGCAAGAAGGAAGGGCAAACAAGGAAAGGACGACAAGgtttgttagcacagactttatttattttaaagt---attta------ttttactttgtttttgaagctgtgc-ccactaacttt---gtttca----cctattgtgtgggttcacaa--------------------------
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA14G10130.1 (Glycine max), 5'ss of exon 6
ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtctagtgcttttttatttaattatcattaagctaaacatagaaactttttaagtagtttatgatttaacgtattactgacatttgagttttattttcttgttttctctatgtgtgataatgatttgatgatcttcttctcag
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GCATAGATGGACTGGTAGATATGAAGCGCATTTGTGGGATAACAGTTGCAAGAAGGAAGGGCAAACCAGGAAAGGACGACAAGgt----------------tagttagcaaaagctttagtattga--ctcattggtaatttgaaaactttatttatt-ttga-actagtgtttttcttactttgttttttgagctgtgccca-----------------------
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA11G04910.1 (Glycine max), 5'ss of exon 4
ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtctagtgcttttttatttaattatcattaagctaaacatagaaactttttaagtagtttatgatttaacgtat-tactgacatttgagttttattttcttgttttctctatgtgtgataatgatttgatgatcttcttctcag
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GCATAGGTGGACTGGTAGATACGAAGCTCATCTATGGGACAACAGCTGCAAGAAAGAGGGCCAAGGAAGGAAAGGAAGGCAAGgta-agaaagcaactattttctcacccctttacctttttttatttttctgtggatatatt-tggtcaaacaaatctact--ctctttaattttgttctcctttg----------------------------------------
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv18s0001g08610.t01 (Vitis vinifera), 5'ss of exon 3
ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgt----ctagtgcttttttatttaattat--cattaagctaaacatagaaacttttta----agtagtttatgatttaacgt-attactgacatttgagttttattttcttgttttctctatgtgtgataatgatttgatgatcttcttctcag----------
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GCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAGgttagtcaagaaaaacaaaacccacttacagcatgcatttggaagtaatccttttttactacagtactcagcccctttatgttgatgttctgacttacactattactccttgtcatgttcatggttattggggatgccattccaatcaattgatgcaattgcag
upper sequence: AT4G37750.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv07s0151g00440.t01 (Vitis vinifera), 5'ss of exon 3
ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtctagtgcttttttatttaattatcattaagctaaacatagaaactttttaagtagtttatgatttaacgtattactgacatttgagttttattttcttgttttctctatgtgtgataatgatttgatgatcttcttctcag
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GCATAGATGGACAGGTAGATATGAAGCTCATCTATGGGACAACAGTTGCAAGAAAGAAGGGCAAAGCAGGAAAGGAAGGCAAGgt-tagtgtcatgccctaggaagttcttctgtctctgca----attttttgtcatattttgttcttgccctaacgactggcgcttgtttctgatttctatgttct--------------------------------------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|164101465|gb|ES113874.1|ES113874EST: ATGGG-CAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGG-AGACAAG TTTATCTGG
genomic: ATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtctagtgct ... ttcttctcagTTTATCTGG
EST:
gi|164065022|gb|ES122160.1|ES122160EST: ATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAG TTTATCTGG
genomic: ATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtctagtgct ... ttcttctcagTTTATCTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAGgtctagtgcttttttatttaattatcattaagctaaacatagaaactttttaagtagtttatgatttaacgtattactgacatttgagttttattttcttgttttctctatgtgtgataatgatttgatgatcttcttctcag
- - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA