Sequence
atgc intronic sequence ATGC exonic sequenceATTGATAGAATTATTGCTAAAGGAGAGGAGGCAACTGCCGAGCTTGATGCCAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacctatgactacctgttctagctttaaaaacaatattggcatgctctttacaagttttatgctttcttctgtttgtagtttagagttactaatactgatactttcttttgtag
Basic information
species | Glycine max |
transcript | GLYMA13G28720.1 |
intron # | 14 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 14
lower sequence: 13113.m00246 (Oryza sativa), 5'ss of exon 14
ATTGATAGAATTATTGCTAAAGGAGAGGAGGCAACTGCCGAGCTTGATGCCAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacctatgactacctgttctagctttaaaaacaatattggcatgctctttacaagttttatgctttcttctgtttgtagtttagagttactaatactgatactttcttttgtag
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ATTGACCGTATCATAGCTAAAGGAGAGGAAACAACAGCTGAGCTTGATGCAAAAATGAAAAAGTTCACAGAGGATGCTATTAAATTTAAAATGGATGACAgtatgtacccttctcccgcagtct---ctttctttctatcactcaggtctaacttagtctttttatgcag-------------------------------------------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 14
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 5'ss of exon 14
ATTGATAGAATTATTGCTAAAGGAGAGGAGGCAACTGCCGAGCTTGATGCCAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacctatgactacctgttctagctttaaaaacaatattggcatgctctttacaagttttatgctttcttctgtttgtagtttagagttactaatactgatactttcttttgtag
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ATTGACCGCATCATCGCTAAGGGAGAAGAAGCAACAGCACAACTTGATGCAAAAATGAAGAAGTTCACAGAAGATGCTATTAAGTTCAAAATGGATGACAgtatgaccctctctctctct-ctctctctctctcaatatctctcacacacttccttc----tctatgtctgcatatattc--agtacaaactcataaagtttggtct------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 14
lower sequence: GRMZM2G010085_T01 (Zea mays), 5'ss of exon 11
ATTGATAGAATTATTGCTAAAGGAGAGGAGGCAACTGCCGAGCTTGATGCCAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacctatgactacctgttctagctttaaaaacaatattggcatgctctttacaagttttatgctttcttctgtttgtagtttagagttactaatactgatactttcttttgtag
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ATTGACCGTATTATAGCTAAAGGAGAGGAGACAACAGCAGAACTTGATGCGAAAATGAAAAAGTTCACTGAGGATGCCATCAAATTTAAGATGGATGATAgtatgtacctgt--tttctgtttctatttcttgtgact-tatt----ctctctttctgtgtcttctgtcaatctac-ctaacaccttttattttctgatgcag----------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 14
lower sequence: AC235535.1_FGT001 (Zea mays), 5'ss of exon 14
ATTGATAGAATTATTGCTAAAGGAGAGGAGGCAACTGCCGAGCTTGATGCCAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacctatgactacctgttctagctttaaaaacaatattggcatgctct--ttacaagttttatgctttcttctgtttgtagtttagagttactaatactgatactttcttttgtag
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ATTGACCGTATTATAGCTAAAGGAGAGGAGACAACAGCTGAACTTGATGCAAAAATGAAAAAGTTCACAGAGGACGCCATTAAATTTAAGATGGATGATAgtatgtacctg---ctccctgttcttatgtc--------ttctgacgttctctgctcctatgtcttatgttttcctacctaaacactttat--tttctgatgcag----------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 14
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 5'ss of exon 14
ATTGATAGAATTATTGCTAAAGGAGAGGAGGCAACTGCCGAGCTTGATGCCAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacctatgactacctgttctagctttaaaaacaatattggcatgctctttacaagttttatgctttcttctgtttgtagtttagagttactaatactgatactttcttttgtag
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ATTGATAGAATCATTGCCAAAGGAGAAGAGGCAACAGCTGAACTTGATGCTAAGATGAAGAAATTCACAGAAGATGCTATACAGTTTAAAATGGATGACAgtaagggtgt-cacttacctactatttcccctattaggttgtgtgaatattgt--aatgttttgataatctgttgt-tttatttgttgtag----------------------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 14
lower sequence: AT3G06400.3 (Arabidopsis thaliana), 5'ss of exon 14
ATTGATAGAATTATTGCTAAAGGAGAGGAGGCAACTGCCGAGCTTGATGCCAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacctatgactacctgttctagctttaaaaacaatattggcatgctctttacaagttttatgctttcttctgtttgtagtttagagttactaatactgatactttcttttgtag
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------AGAATCATTGCCAAAGGAGAAGAGGCAACAGCTGAACTTGATGCTAAGATGAAGAAATTCACAGAAGATGCTATACAGTTTAAAATGGATGACAGTAAGGgtgt-cacttacctactatttcccctattaggttgtgtgaatattgt--aatgttttgataatctgttgt-tttatttgttgtag----------------------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 14
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 14
ATTGATAGAATTATTGCTAAAGGAGAGGAGGCAACTGCCGAGCTTGATGCCAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacctatgactacctgttctagctttaaaaacaatattggcatgctctttacaagttttatgctttcttctgtttgtagtttagagttactaatactgatactttcttttgtag
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ATTGACAGAATCATTGCCAAAGGAGAAGAGGCAACGGCTGAACTTGATGCCAAGATGAAGAAATTTACTGAAGATGCAATACAGTTTAAAATGGATGACAgtaagtgt-----gctatttatccctttttc-----caatggtaac-tcccttgcatgggtaatgggatgtccaaacaagatagtttttggtttgttgcag------------------
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 14
ATTGATAGAATTATTGCTAAAGGAGAGGAGGCAACTGCCGAGCTTGATGCCAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacctatgactacctgttctagctttaaaaacaatattggcatgctctttacaagttttatgctttcttctgtttgtagtttagagttactaatactgatactttcttttgtag
|| || || || |||||||||||||| |||||||| || ||||||||||| || |||||||||||||| |||||||||||||||||||| |||||||| ||||||| || || | | | | | || |||| | | | ||| |||| || | | | | || | || ||| | | || || || | ||
ATAGACAGGATCATTGCTAAAGGAGAAGAGGCAACAGCTGAGCTTGATGCTAAGATGAAGAAATTTACAGAAGATGCCATCAAATTTAAAATGGATGATAgtatgtg-----gatccactatccagggctctcactcattatttac---ttatctac---ttttgaaagttatggggct---aaaatataatt--taacatttatcctgctttgttcag
upper sequence: GLYMA13G28720.1 (Glycine max), 5'ss of exon 14
lower sequence: EFJ06565 (Selaginella moellendorffii), 5'ss of exon 14
ATTGATAGAATTATTGCTAAAGGAGAGGAGGCAACTGCCGAGCTTGATGCCAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacctatgactacctgttctagctttaaaaacaatattggcatgctctttacaagttttatgctttcttctgtttgtagtttagagttactaatactgatactttcttttgtag
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ATTGATCGCATCATTGCAAAAGGAGAAGAAGCCACTGCTGAACTTGATGCCAAGATGAAGAAATTTACGGAGGACGCCATCAAATTTAAGATGGACGACAgtaagttctagtgcgtttttgtgttctccttat--------ctagcgtttcgtttaacag-----------------------------------------------------------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|254331883|gb|GR846193.1|GR846193EST: CAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACA CTGCTGAATTATATGATTTTGATGATGAGAAG
genomic: CAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacct ... tcttttgtagCTGCTGAATTATATGATTTTGATGATGAGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTGATAGAATTATTGCTAAAGGAGAGGAGGCAACTGCCGAGCTTGATGCCAAAATGAAGAAATTTACTGAAGATGCCATCAAATTTAAGATGGATGACAgtatgtacctatgactacctgttctagctttaaaaacaatattggcatgctctttacaagttttatgctttcttctgtttgtagtttagagttactaatactgatactttcttttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA