Sequence
atgc intronic sequence ATGC exonic sequenceATTGACAGAATTATTGCTAAAGGAGAGGAAGCAACAGCTGAGCTTGATGCTAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatgtaacctttgaatataatttctggctttgctaaagttggtttgattgatgatgttaaaaatctattttgttgtttaaatttctgtatatccacaag...
Basic information
species | Glycine max |
transcript | GLYMA17G02640.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 14
lower sequence: 13113.m00246 (Oryza sativa), 5'ss of exon 14
ATTGACAGAATTATTGCTAAAGGAGAGGAAGCAACAGCTGAGCTTGATGCTAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatgtaacctttgaatataatttctggctttgc-taaagttggtttga-ttgatgatgttaaaaatctattttgttgtttaaatttctgtatatccacaag
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ATTGACCGTATCATAGCTAAAGGAGAGGAAACAACAGCTGAGCTTGATGCAAAAATGAAAAAGTTCACAGAGGATGCTATTAAATTTAAAATGGATGACAgtatgtacccttctcccgcagtctctttctttctatcactcaggtctaacttagtctttttatgcag-----------------------------------
upper sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 5'ss of exon 14
ATTGACAGAATTATTGCTAAAGGAGAGGAAGCAACAGCTGAGCTTGATGCTAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatgtaacctttgaatataatttctggctttgctaaagttggtttgattgatgatgttaaaaatctat-tttgtt--gtttaaatttctgtatatccacaag
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ATTGACCGCATCATCGCTAAGGGAGAAGAAGCAACAGCACAACTTGATGCAAAAATGAAGAAGTTCACAGAAGATGCTATTAAGTTCAAAATGGATGACAgtatg--accctctctctctctctctctctctctcaatatctctcacacacttccttctctatgtctgcatatattcagtacaaactcataaagtttggtct-
upper sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G010085_T01 (Zea mays), 5'ss of exon 11
ATTGACAGAATTATTGCTAAAGGAGAGGAAGCAACAGCTGAGCTTGATGCTAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatgtaacctttgaatataatttctggctttgctaaagttggtttgattgatgatgttaaaaatctattttgttgtttaaatttctgtatatccacaag
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ATTGACCGTATTATAGCTAAAGGAGAGGAGACAACAGCAGAACTTGATGCGAAAATGAAAAAGTTCACTGAGGATGCCATCAAATTTAAGATGGATGATAgtatgtacctgttttctgtttctatttcttgtgacttattctctctttctgtgtcttctgtcaatctacctaacaccttttattttctgatgcag-----
upper sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 14
lower sequence: AC235535.1_FGT001 (Zea mays), 5'ss of exon 14
ATTGACAGAATTATTGCTAAAGGAGAGGAAGCAACAGCTGAGCTTGATGCTAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatgtaacctttgaatataatttctggctttgctaaagttggtttgattgatgatgttaaaaatctattttgttgtttaaatttctgtatatccacaag---
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ATTGACCGTATTATAGCTAAAGGAGAGGAGACAACAGCTGAACTTGATGCAAAAATGAAAAAGTTCACAGAGGACGCCATTAAATTTAAGATGGATGATAgtatgtacctgctccctgt---tcttatgtcttctgacgttctctgctcctatg-tctta------tgttttcctacctaaacactt-tattttctgatgcag
upper sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 14
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 5'ss of exon 14
ATTGACAGAATTATTGCTAAAGGAGAGGAAGCAACAGCTGAGCTTGATGCTAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatg--taacctttgaatataatttctggctttgctaaagttggtttgattgatgatgttaaaaatctattttgttgtttaaatttctgtatatccacaag
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ATTGATAGAATCATTGCCAAAGGAGAAGAGGCAACAGCTGAACTTGATGCTAAGATGAAGAAATTCACAGAAGATGCTATACAGTTTAAAATGGATGACAgtaagggtgtcacttacctactatttc---ccctattaggttgtgtgaatattgtaatgttttga---taatctgttgttttatttgttgtag---------
upper sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 14
lower sequence: AT3G06400.3 (Arabidopsis thaliana), 5'ss of exon 14
ATTGACAGAATTATTGCTAAAGGAGAGGAAGCAACAGCTGAGCTTGATGCTAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatg--taacctttgaatataatttctggctttgctaaagttggtttgattgatgatgttaaaaatctattttgttgtttaaatttctgtatatccacaag
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------AGAATCATTGCCAAAGGAGAAGAGGCAACAGCTGAACTTGATGCTAAGATGAAGAAATTCACAGAAGATGCTATACAGTTTAAAATGGATGACAGTAAGGgtgtcacttacctactatttc---ccctattaggttgtgtgaatattgtaatgttttga---taatctgttgttttatttgttgtag---------
upper sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 14
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 14
ATTGACAGAATTATTGCTAAAGGAGAGGAAGCAACAGCTGAGCTTGATGCTAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatgtaacctttgaatataatttctggctttgctaaagt--tggtttgattgatgatgttaaaaatctattttgttgtttaaatttctgtatatccacaag
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ATTGACAGAATCATTGCCAAAGGAGAAGAGGCAACGGCTGAACTTGATGCCAAGATGAAGAAATTTACTGAAGATGCAATACAGTTTAAAATGGATGACAgtaagtgtgctat--ttatccctttttccaatggtaactcccttgcatgggtaatgggatgtccaaacaagatagtt-tttggtttgttgcag---------
upper sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 14
ATTGACAGAATTATTGCTAAAGGAGAGGAAGCAACAGCTGAGCTTGATGCTAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatgtaacctttgaatataat-ttctggctttgctaaagttggtttgattgatgatgttaaaaatctattttgttgtttaa-atttctg-tatatccacaag
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ATAGACAGGATCATTGCTAAAGGAGAAGAGGCAACAGCTGAGCTTGATGCTAAGATGAAGAAATTTACAGAAGATGCCATCAAATTTAAAATGGATGATAgtatgtggatccactatccagggctctcactcattatttacttatctacttttgaaagttatggggctaaaatataatttaacatttatcctgctttgttcag
upper sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 14
lower sequence: EFJ06565 (Selaginella moellendorffii), 5'ss of exon 14
ATTGACAGAATTATTGCTAAAGGAGAGGAAGCAACAGCTGAGCTTGATGCTAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatgtaacctttgaatataatttctggctttgctaaagttg-gtttgattgatgatgttaaaaatctattttgttgtttaaatttctgtatatccacaag
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ATTGATCGCATCATTGCAAAAGGAGAAGAAGCCACTGCTGAACTTGATGCCAAGATGAAGAAATTTACGGAGGACGCCATCAAATTTAAGATGGACGACAgtaagttctagtgcgtttttgtgttctccttatctagcgtttcgtttaacag-------------------------------------------------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|207769455|gb|GD741643.1|GD741643EST: TAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACA CTGCTGAGTTGTATGATTTTGA
genomic: TAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatgtaacc ... cattttgtagCTGCTGAGTTGTATGATTTTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTGACAGAATTATTGCTAAAGGAGAGGAAGCAACAGCTGAGCTTGATGCTAAGATGAAAAAATTTACTGAAGATGCTATCAAATTTAAGATGGATGACAgtatgtaacctttgaatataatttctggctttgctaaagttggtttgattgatgatgttaaaaatctattttgttgtttaaatttctgtatatccacaag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA