Sequence
atgc intronic sequence ATGC exonic sequenceAACCTCAACTCGCACACCAATTTATAAAGCCTTTGCTAAAGGAGAAAACATAGGGGATGTCACTGCTAAAGGAGAATGTGTTGGCAATATTGCAGACCTGgtatgtttttttaacttcccaacagttgctataatgctgccatgattttgttggaacattgcttgcaacaatttttgcacttttctttgtcatccaatca...
Basic information
species | Glycine max |
transcript | GLYMA07G40210.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g66350.1 (Oryza sativa), 5'ss of exon 6
AACCTCAACTCGCACACCAATTTATAAAGCCTTTGCTAAAGGAGAAAACATAGGGGATGTCACTGCTAAAGGAGAATGTGTTGGCAATATTGCAGACCTGgtat------gtttttttaacttccc----aacagttgctataatgctgccatgattttgttggaacattgcttgcaacaatttttgcacttttctttgtcatccaatca
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AACATCAACTCGAACTCCAATTTATAAGGCCTATGCAAGAGGAGAAAACATTGGAGATGTCACTGCTAAAGGCGAATCTGTTGGGAACATTGCAGATCTGgtaattattaatctgttgagctttcttgttactaagtggcttgtcaataccaaggcttcct---aatgctgctataaatgattgttgcaacctactgatttct-------
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os05g34650.1 (Oryza sativa), 5'ss of exon 6
AACCTCAACTCGCACACCAATTTATAAAGCCTTTGCTAAAGGAGAAAACATAGGGGATGTCACTGCTAAAGGAGAATGTGTTGGCAATATTGCAGACCTGgta----tgtttttttaacttcccaacagttgctataatg-ctgccatg-attttgttggaacatt--gcttgcaacaatttttgcact--tttctttgtcatccaatca------------------------------------------------------------------------------
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AACCTCGACCCGTACACCAATCTACAAGGCATATGCAAAAGGAGAAAATATTGGAGATGTCACTGCCAAAGGAGAAAGTGTTGGGAACATTGCTGATCTGgtaatcattcatcttttgcattttgtttcttgttggtctggttaccatacatgtagcttatatattctgctggcatcatttatgttaatagtatgctggctactaaaatttgtcttattcagtactgcacttatatgaaaatttgcattcaatagttcactgatatttctgtctttttatgtgtgaag
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G081188_T01 (Zea mays), 5'ss of exon 6
AACCTCAACTCGCACACCAATTTATAAAGCCTTTGCTAAAGGAGAAAACATAGGGGATGTCACTGCTAAAGGAGAATGTGTTGGCAATATTGCAGACCTGgtatgtttttttaacttccca-acagttgctataatgctgccatgattttgttggaacattgcttgc-aacaatttttgcacttttctttgtcatccaatca-
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AACTTCAACTCGCACTCCAATCTATAAGGCCTATGCTAGAGGAGAAAATATTGGAGATGTCACTGCTAAAGGCGAATCTGTTGGGAACATTGCAGATCTGgtaaaaatc---aattcatcatactgttacctctaaatatttcttgttgcatggtggcatgccaaattaacatttcgtgaaatgtccttttttgttagtataa
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM5G833124_T01 (Zea mays), 5'ss of exon 6
AACCTCAACTCGCACACCAATTTATAAAGCCTTTGCTAAAGGAGAAAACATAGGGGATGTCACTGCTAAAGGAGAATGTGTTGGCAATATTGCAGACCTGgtatgtttttttaacttcc---caac----ag--ttgctataatgctgccatgattttgttggaacattgc-ttgcaacaatttttgcacttttctttgtcatccaatca-------------------------------------------
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CACCTCTACTCGAACACCAATTTACAAGGCGTATGCAAAAGGAGAAAACATCGGTGATGTTACTGCTAAAGGAGAAAGTGTTGGAAACATTGCTGATCTGgtatgtgttcatgtttttcattgaacttggagcttttttttgctgccgccattgtgttattatcatattatgctttttcaatcactgccattttccccttctctgatttagttttgtaagatatcttttgatttacattttttgtttgtgaag
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G49820.1 (Arabidopsis thaliana), 5'ss of exon 6
AACCTCAACTCGCACACCAATTTATAAAGCCTTTGCTAAAGGAGAAAACATAGGGGATGTCACTGCTAAAGGAGAATGTGTTGGCAATATTGCAGACCTGgtatgtttttttaacttcccaacagttgctataatgctgccatgattttgttggaacattgcttgcaac--aatt---tttgcacttttctttgtcatccaatca------------------------------------------------------------------------------------------------
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AACGTCTACTCGTACACCGATCTATAAAGCCTTTGCTAAAGGAGAAAACATAGGAGACGTAACTGCTAAAGGAGAGTGTGTTGGTAATATTGCAGATCTGgtatgacccttt--ttcaacattagttttcattgtttcttgggtgttttgttggtttaatctgtcaagcggaattaaatttgaactaaaggtggctacattgctagtttgctacttgttgcttaagggtcgaaatagattctgtttgatctctttttgagctctaaaattttcatttgtttttattattttctatgtgaag
upper sequence: GLYMA07G40210.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv12s0035g01870.t01 (Vitis vinifera), 5'ss of exon 6
AACCTCAACTCGCACACCAATTTATAAAGCCTTTGCTAAAGGAGAAAACATAGGGGATGTCACTGCTAAAGGAGAATGTGTTGGCAATATTGCAGACCTGgtatgtttttttaacttcccaacagttgctataatgctgccatgattttgttggaacattgcttgcaacaatttttgcacttttctttgtcatccaatca--
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AACATCAACCCGCACACCAATTTACAAAGCCTTTGCTAAAGGAGAAAACATTGGAGATGTCACTGCTAAAGGAGAATGTGTTGGCAATATTGCTGATCTGgtacgcttgttaaactttcaatctccaaagatgatatg--catatatcaaggatatgaatacgggtttgggtgtctggaaagcaaaatgacatatgacatgcMapped 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|7233755|gb|AW569098.1|AW569098EST: TATGGGATGTCACTGCTAAAGGAGAATGTGTTGGCAATATTGCAGACCTG TTAGGAACTGGTTTGAGCATATTGATTGCCAAAAGGAATCCATCGCTTGTC
genomic: TAGGGGATGTCACTGCTAAAGGAGAATGTGTTGGCAATATTGCAGACCTGgtatgttttt ... caatttgcagTTAGGAACTGGTTTGAGCATATTGATTGCCAAAAGGAATCCATCGCTTGTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AACCTCAACTCGCACACCAATTTATAAAGCCTTTGCTAAAGGAGAAAACATAGGGGATGTCACTGCTAAAGGAGAATGTGTTGGCAATATTGCAGACCTGgtatgtttttttaacttcccaacagttgctataatgctgccatgattttgttggaacattgcttgcaacaatttttgcacttttctttgtcatccaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA