Sequence
atgc intronic sequence ATGC exonic sequenceCTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttctttcccccagggttcatgtcaattttatttatcctaattattggtcatgtttcttatgtctgatcatacatgcaaattattgcacatgtt...
Basic information
species | Glycine max |
transcript | GLYMA15G00510.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G00510.2 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os06g44150.1 (Oryza sativa), 5'ss of exon 4
CTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgt-------tttctttcccccagggttcatgtcaat-tttatttatcctaattattggtcatgtttcttatgtctgatcatacatgcaaattattgcacatgtt-
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----------------------------------------------------CTGAAGGAGTACATTGATGACACTGAAGATTTTATCAACATTCAGTTGgtaaatcagcatctctcttaccctcatccatactgccatcacctcttcatcctgcatacaa--tgggcctataccaacttattttccatg-gctttgttgtgctttcag
upper sequence: GLYMA15G00510.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G170326_T01 (Zea mays), 5'ss of exon 5
CTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttc---tttcccccagggttcatgtcaattttatttatcctaattattggtcatgtttcttatgtctgatc-atac-atgcaaatta--ttgcacatgtt-----
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----------------------------------------------------CTTAAAGAGTACATTGATGACACTGAAGACTTCATCAACATTCAGCTGgtacgtcgacatattttatactctgcttatttgggatatgcatatcaggtttatg---catttcccatactgctggtctgtgttatttgacttgagttccatatgttcctag
upper sequence: GLYMA15G00510.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G064467_T01 (Zea mays), 5'ss of exon 4
CTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttctttcccccagggttcatgtcaattttatttatccta-attattggtcatgtttcttatgtctgatcatacatgcaaattattgcacatgtt-
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----------------------------------------------------CTAAAGGAGTATATTGATGACACAGAAGATTTCATCAACATACAACTGgta-attcacccgcaaatcgattaaattcccattatgtagatgcaggaagagttgtc-tgcatgctactcccgggcaactgtgtgaaagcatgtagatgatt
upper sequence: GLYMA15G00510.2 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G108477_T01 (Zea mays), 5'ss of exon 4
CTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttctttcccccagggttcatgtcaattttatttatcctaattattggtcatgtttcttatgtctgatc-atacatgcaaatta---ttgcacatgtt-----
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----------------------------------------------------CTTAAAGAGTACATCGATGACACTGAAGACTTCATCAACATTCAGCTGgtatgccagcatatttt-atgctctctattcgggatatgaatatcagagtttatgcatttctcacactgctggtctgtgtaacttatttgactttccatatgttcctag
upper sequence: GLYMA15G00510.2 (Glycine max), 5'ss of exon 4
lower sequence: AT1G16010.3 (Arabidopsis thaliana), 5'ss of exon 6
CTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttctttcccccagggttcatgtcaattttatttatcctaattattggt-catgtttcttatgtctgatcatacatgcaaattattgcacatgtt
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----------------------------------------------------TTAAAGGAGTACATTGATGACACTGAAGATTTCATTAACATTCAACTGgtaatacctcaaaattccatcttccacagc--tgatattaatccagattgagaatgcacaagagtcatg-ctgaaaacctcttcaa-tatctgcag-----
upper sequence: GLYMA15G00510.2 (Glycine max), 5'ss of exon 4
lower sequence: AT1G80900.1 (Arabidopsis thaliana), 5'ss of exon 4
CTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttctttcccccagggttcatgtcaattttatttatcctaattattggtcatgtttcttatgtctgatcatacatgcaaattattgcacatgtt
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----------------------------------------------------TTAAAGGAGTACATCGATGATACCGAAGATTTCATCAACATTCAATTGgtatacctt---------gaaatcttgatcttttttagatatcttatttgcttagaaaaccttaagaatctgctgaaaatttctggaatttgcag-----
upper sequence: GLYMA15G00510.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0018g00600.t01 (Vitis vinifera), 5'ss of exon 4
CTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgt----tttctttcccccagggttcatgtcaattttatttatcctaattattggtcatgtttcttatgtctgatcatacatgcaaattattgcacatgtt
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----------------------------------------------------CTGAAGGAATACATTGATGACACAGAAGATTTCATTAACATTCAGCTGgtacgtgttgtttctttcttatatgtttggttccgagaaagtattaagaaaagaaaaaaaattgctattaaaaatgatttctcatatttgattttac-tat---
upper sequence: GLYMA15G00510.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ36513 (Selaginella moellendorffii), 5'ss of exon 5
CTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttctttcccccagggttcatgtcaattttatttatcctaattattggtc-atgtttcttatgtctgatcatacatgcaaattattgcacatgtt
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----------------------------------------------------CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgta------ctttccgagaag----ttgtcgatccaaggtttttcggtttttgatcgatggtctttggttttgatcgtccag-------------------
upper sequence: GLYMA15G00510.2 (Glycine max), 5'ss of exon 4
lower sequence: EFJ18545 (Selaginella moellendorffii), 5'ss of exon 5
CTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttctttcccccagggttcatgtcaattttatttatcctaattattggtcatgtttcttatgtctgatcatacatgcaaattattgcacatgtt
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----------------------------------------------------CTCAAGGAGTACATTGACGACACCGAGGATTTCATCAACATCCAACTGgtactttt--------cgagaagt--tgtcgatccaaggtttttcggtttttgatcgatggtctt-tgtccag---------------------------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|42722911|gb|CK768810.1|CK768810EST: AGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTG GATAATGTGCGAAATCAGCTTATTCAGTTTGAGCTTTTACTCACAACTGCA
genomic: AGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttc ... tttctcacagGATAATGTGCGAAATCAGCTTATTCAGTTTGAGCTTTTACTCACAACTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTCTGGCTTCATAACAGTTTAGCAACCACTGTTTCCTGCTTTTTGTTTCAGTTGAAAGAATACATTGATGACACCGAAGATTTCATCAACATTCAACTGgtttgttttctttcccccagggttcatgtcaattttatttatcctaattattggtcatgtttcttatgtctgatcatacatgcaaattattgcacatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttccccc