Sequence
atgc intronic sequence ATGC exonic sequenceGCTTATTCCACAGTTGGTACACCAGATTATATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagttttatgcatgtgaatgttggcatgttatcaaatattggtttctctgctatttgtgtttgtatatcatagcatccaagtttatcttttaattcat...
Basic information
species | Glycine max |
transcript | GLYMA10G04410.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G04410.2 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os10g33640.1 (Oryza sativa), 5'ss of exon 6
GCTTATTCCACAGTTGGTACACCAGATTATATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagttttatgcatgtgaatgttggcatgttatcaaatattggtttctctgctatttgtgtttgtatatcatagcatccaagtttatcttttaattcat
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GCATACTCCACTGTCGGTACACCGGACTACATTGCTCCAGAAGTTCTTCTAAAAAAGGGTTATGGAATGGAGTGTGATTGgtaagcatcgtttacataaatatct-cgtgccatggacctcttgagtttgcagtaaagaaattgaataatttcaactatctag-----------------
upper sequence: GLYMA10G04410.2 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G088245_T01 (Zea mays), 5'ss of exon 6
GCTTATTCCACAGTTGGTACACCAGATTATATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagttttatgcatgtgaatgttggcatgttatcaaatattggtttctctgctatttgtgtttgtatatcatagcatccaagtttatcttttaattcat
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GCTTACTCGACCGTCGGAACACCAGACTACATCGCTCCAGAAGTTCTTCTGAAGAAAGGCTACGGGATGGAATGTGACTGgtaagcatc-tccttgcaccatcgatcgcattgatgagtctagtctcaaacaaatcccatgtttccag--------------------------------
upper sequence: GLYMA10G04410.2 (Glycine max), 5'ss of exon 7
lower sequence: Vv07s0005g03690.t01 (Vitis vinifera), 5'ss of exon 6
GCTTATTCCACAGTTGGTACACCAGATTATATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagttttatgcatg-tgaatgttggcatgttatc-aaatatt-----ggtttctctgctatt----tgtgtttgtatatcatagcatccaagtttatcttttaattcat
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GCTTATTCTACTGTTGGGACACCAGACTATATCGCTCCAGAAGTTTTATTGAAGAAAGGTTATGGGATGGAATGTGATTGgtaagtggtttacacaatgggaactgattggtcatttggatatcccatggaatttgaaattgttccgatgtttttcctttacatagcatttgaaatgatt-----------
upper sequence: GLYMA10G04410.2 (Glycine max), 5'ss of exon 7
lower sequence: PP1S87_129V6.1 (Physcomitrella patens), 5'ss of exon 6
GCTTATTCCACAGTTGGTACACCAGATTATATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagttttatgcatgtgaatgttggcatgttatcaaatattggtttctctgctatttgt--gtttgtatatcatagcatccaagtttatctttta-attcat
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GCATATTCAACAGTCGGCACTCCAGATTATATTGCTCCTGAAGTACTGCTGAAGAAAGGCTATGGGATGGAGTGTGACTGgtatgcatcgaattgattcatattac--tgaaacttgctcttgatgtccctggtctaagttgagctgtgccccatatgacattgactcattatttggagttg-
upper sequence: GLYMA10G04410.2 (Glycine max), 5'ss of exon 7
lower sequence: PP1S22_429V6.1 (Physcomitrella patens), 5'ss of exon 6
GCTTATTCCACAGTTGGTACACCAGATTATATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagttttatgcatgtgaatgttggcatgttatcaaatat--tggtttctctgctatttgtgtttgtatatcatagcatccaagtttatcttttaattcat
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GCGTATTCGACAGTCGGCACTCCAGACTATATCGCTCCGGAAGTACTGTTGAAGAAGGGTTATGGGATGGAGTGTGACTGgtatgtagcaagt-tgtgctccttggcccctgaatgcatttcctagctttttaagttgttttttttccggaggtttgaacgtaagtttctctgcag------
upper sequence: GLYMA10G04410.2 (Glycine max), 5'ss of exon 7
lower sequence: PP1S86_100V6.1 (Physcomitrella patens), 5'ss of exon 6
GCTTATTCCACAGTTGGTACACCAGATTATATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagtt-----ttatgcatgtgaatgttgg-catgttatc---aaatattggtttctctgctatttgtgtttgtata-tcatagcatccaa---gtttatcttttaattcat------
|| ||||| ||||| || || ||||| || || ||||| ||||| || |||||||| |||||||||||||| ||||| |||| || | | | ||||| || | | ||||| | || | | |||| || | | | | | | ||| | || | | ||
GCCTATTCAACAGTCGGCACTCCAGACTACATCGCTCCTGAAGTCCTGTTGAAGAAGGGTTATGGGATGGAGTGTGACTGgtatgtgacaagtcgttctcctgaatctttctctttttatccttggctcatgatgtacttgcttagcttgataaagttcttgttgtgttcaaaaaggttgaacgtaagttttcctacag
upper sequence: GLYMA10G04410.2 (Glycine max), 5'ss of exon 7
lower sequence: EFJ29515 (Selaginella moellendorffii), 5'ss of exon 6
GCTTATTCCACAGTTGGTACACCAGATTATATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagttttatgcatgtgaatgttggcatgttatcaaatattggtttctctgctatttgtgtttgtatatcatagcatccaagtttatcttttaattcat
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GCTTATTCAACTGTCGGGACGCCAGATTATATTGCTCCCGAAGTTCTACTGAAGAAGGGATACGGGATGGAGTGTGATTGgtaagaggcatt--tctgattgaaaatat-ctaccggc--ttgattgatttatggtgcctag--------------------------------------
upper sequence: GLYMA10G04410.2 (Glycine max), 5'ss of exon 7
lower sequence: EFJ28086 (Selaginella moellendorffii), 5'ss of exon 6
GCTTATTCCACAGTTGGTACACCAGATTATATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagttttatgcatgtgaatgttggcatgttatcaaatattggtttctctgctatttgtgtttgtatatcatagcatccaagtttatcttttaattcat
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GCTTATTCAACTGTCGGGACGCCAGATTATATTGCTCCCGAAGTTCTACTGAAGAAGGGATACGGGATGGAGTGTGATTGgtaagaggca--cttctgattgaaaatat-ctaccggc--ttgattgatttatggtgcctag--------------------------------------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|9986562|gb|BE660670.1|BE660670EST: ATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTG GTGGTCACTTGGAGCTATTATGTACGAAATGCTGGTGGGATATCCTNCTTT
genomic: ATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagtttta ... aaattcacagGTGGTCACTTGGAGCTATTATGTACGAAATGCTGGTGGGATATCCTCCTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTTATTCCACAGTTGGTACACCAGATTATATTGCTCCAGAAGTTCTTTTGAAGAAAGGTTATGGGATGGAATGTGATTGgtgagttttatgcatgtgaatgttggcatgttatcaaatattggtttctctgctatttgtgtttgtatatcatagcatccaagtttatcttttaattcat
- - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA