Sequence
atgc intronic sequence ATGC exonic sequenceTTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAGgtaatccttgctgaaggcatgtaaatgcatacgaaaggatatagtggctctatctttattggttttttgttcctcctttttattgctattccgaagtttt...
Basic information
species | Glycine max |
transcript | GLYMA07G09070.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G09070.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os07g22640.4 (Oryza sativa), 5'ss of exon 6
TTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAGgta-atccttgctgaaggca---tgtaaatgcatacgaaaggatatagtggctctat--ctttattggttttttgttcctcctttttattgctattccgaagtttt
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CTCAAAGATCTTCAAGTCTACACCATTGTCCGTGTTGTATTTCAACTATCAGAGGAGATCCCTTGCATCTCTGCTGTTGTTGTTGCTCTTCTTGCAGAGgtatacatctacaaaaaatgatttatctttctatttcaaaggagattttttttctaagacaatacaggagatctgcatgtctaagcagagacgagtcttg------
upper sequence: GLYMA07G09070.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G092129_T02 (Zea mays), 5'ss of exon 6
TTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAGgtaatccttgctgaaggcatgtaaatgcatacgaaaggatatagtggctctatctttattggttttttgttcctcctttttattgctattccgaagtttt-----
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CTCAAGGATCTTCAGGTCTATACTGTCATACGTGTTATATTTCAACTGTCTGAAGACATCCCTTGCATTTCTGCTGTTGTTGTGGCTCTCCTTGCTGATgcaagtat--ctagtacccagta--tcattactacacccttttattatctgatgttt-tagattttaagtacacttaccgtgctgcctttttaaaattacatccc
upper sequence: GLYMA07G09070.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G61030.1 (Arabidopsis thaliana), 5'ss of exon 6
TTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAGgtaatccttgctgaaggcatgtaaatgcatacgaaaggatatagtggctctatctttattggttttttgttcctcctttttattg-----ctattccgaagtttt-------
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TTGAAGGATCTTCAAGTTTTCACAGTTGCACGTGTTATCTTTCAACTTGCGGATGAGATTCCTCGTATATCTGCTGTTGTTGTTGCTCTACTGGCTGAGgta-cacttgtt------ctgtaaa-gggtccagaataagat-gcatttttgttattatcattttatatctcctgtcttacaatgaccaactatttaaatgttctcaaccag
upper sequence: GLYMA07G09070.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G61050.1 (Arabidopsis thaliana), 5'ss of exon 7
TTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAGgtaatccttgctgaaggcatgtaaatgcatacgaaaggatatagtggctctatctttattggttttttgttcctcctttttattg-ctattccgaagtttt-------
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TTGAAGGATCTTCAAGTTTTCACAGTTGCACGTGTTATCTTTCAACTTGCGGATGAGATTCCTTGTATATCTGCTGTTGTTGTTGCTCTACTTGCTGAGgtacacttttcc-------tgtaaaggtccagaataagattcatttttcttatatcattttatatctcctgtcttacaatgaccaactatttaaatgatctcaaccag
upper sequence: GLYMA07G09070.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G60950.1 (Arabidopsis thaliana), 5'ss of exon 6
-TTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAGgtaatccttgctgaaggcatgtaaatgcatacgaaaggatatagtggctctatctttattggttttttgttcctcctttttattg-----ctattccgaagtttt-------
||||||||||| || |||||||| ||| ||||| || || |||||||| || ||||| ||| | || |||||||||||||| ||||| || ||||||||| |||||| |||||| | | | || | || | | | | |||| ||| | |||| || | || ||||| | ||| |
GTTGAAGGATCTTCAAGTTTTCACAGTTGCACGTGTTATCTTTCAACTTGCGGATGAGATTCCTCGTATATCTGCTGTTGTTGTTGCTCTACTGGCTGAGgta-cacttgct------ctgtaaa-gggtccagaataagat-gcatttttgttattatcattttatatctcctgtcttacaatgaccaactatttaaatgttctcaaccag
upper sequence: GLYMA07G09070.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv15s0048g01410.t01 (Vitis vinifera), 5'ss of exon 7
TTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAGgtaatccttgctgaaggcatgtaaatgcatacgaaaggatatagtggctctatctttattggttttttgttcctcctttt--tattgctattccgaagtttt-
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TTGAAGGATCTCCAAGTTTTCACTGTTGCTCGTGTTATCTTCCAACTTGCAGAAGAGATACCTTGTATTTCTGCTGTTATTGTTGCTCTACTTTCTGAGgtacatcttacgaaaaatgcttaagtgctt--gaaatttttttgcaattcaaccca-gttgttgtcataatcttaactgtggtatacatatcatatatctttcMapped 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|27808987|gb|CB063409.1|CB063409EST: CTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAG CCAAAGCCCAGGATTGATTATACTCTGAAAGCTGTTGGTGGAAGTTTAACG
genomic: CTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAGgtaatccttg ... attttatcagCCAAAGCCCAGGATTGATTATACTCTGAAAGCTGTTGGTGGAAGTTTAACG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGAAGGATCTACAGGTTTTCACCATTGTCCGTGTGATATTCCAACTTGCTGAAGAGATCCCTTGCATTTCTGCTGTTGTTGTAGCTCTGCTTGCTGAGgtaatccttgctgaaggcatgtaaatgcatacgaaaggatatagtggctctatctttattggttttttgttcctcctttttattgctattccgaagtttt
- - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcctcc