Sequence
atgc intronic sequence ATGC exonic sequencegtattccttgttagtgtaacctgtttgtattctttttttattgaatctgaatttagcagacatgttctttggtttgttttttcatatttcccagGACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTACAAAATTTAGTGATGTAAAAGGTGTTGATGAGGCAAAGGAAGAGCTGGAAGAAAT
Basic information
species | Glycine max |
transcript | GLYMA17G34610.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G34610.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g39260.1 (Oryza sativa), 3'ss of exon 4
gtattccttgttagtgtaacctgtttgtattctttttttattgaatctgaatttagcagacatgttctttggtttgttttttcatatttcccagGACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTACAAAATTTAGTGATGTAAAAGGTGTTGATGAGGCAAAGGAAGAGCTGGAAGAAAT
|| | | | ||| || | || || || | ||||| ||| ||| || | ||| | || | | ||| |||||| |||||||||| || ||||| ||||||||||| | ||| ||||| ||||||||||| ||||| ||||| || || | || || || |||||
--gtttgaattctgaaagatctgaatg-gctaattccttgttta--ctgaacttattcc-tgtgtagttctgattgataaaatatgtgt---agGCCTTGGTCTAAATGAAGAGGTTCAACCAAGCATGGAATCTAATACGAAATTCAGTGATGTAAAGGGTGTCGATGAAGCCAAAGCTGAACTTGAGGAAAT
upper sequence: GLYMA17G34610.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g39250.1 (Oryza sativa), 3'ss of exon 4
gtattccttgttagtgtaacctgtttgtattctttttttattgaatctgaatttagcagacatgttctttggtttgttttttcatatttcc-cagGACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTACAAAATTTAGTGATGTAAAAGGTGTTGATGAGGCAAAGGAAGAGCTGGAAGAAAT
||| | | | | | | || || | ||| | | || | | | || | | | || | | | |||| ||| |||||| ||| | ||||||| ||||| | |||||| || | |||||||| ||||||||||| ||||||||||| || || | || || || |||||
-----gtttggttttctgaaatatctgaatgactaattttctagacctttactggacttctttgctgtg-attctgatcgatgaaatttgtgtagGTCTTGGTCTAAGTCAAGAAGTTCAACCAATCATGGATTCTAAAACAAAATTCAGTGATGTAAAGGGTGTTGATGAAGCCAAAGCTGAACTTGAGGAAAT
upper sequence: GLYMA17G34610.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G096764_T01 (Zea mays), 3'ss of exon 4
gtattccttgttagtgtaacctgtttgtattctttttttattgaatctgaatttagcagacatgttctttggtttgttttttcatatttcccagGACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTACAAAATTTAGTGATGTAAAAGGTGTTGATGAGGCAAAGGAAGAGCTGGAAGAAAT
| || ||| | | |||||| | |||| ||| || | ||| | |||| | | || || || |||||| | |||||||| || ||||| ||||| || || | ||||||||| ||||||||||| ||||||||||| ||||| || || ||||||||
----gtttgatttttgtgaaagatatgtattatctttt----gaacggcaagtcagcccattaacccttta--tagattgaatgta-------gGTCTTGGTCTGAATGAAGAGGTTCAACCAAGCATAGAGTCTACTACAAAATTCAGTGATGTAAAGGGTGTTGATGAAGCAAAATCTGAACTTGAAGAAAT
upper sequence: GLYMA17G34610.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G463032_T01 (Zea mays), 3'ss of exon 3
gtattccttgttagtgtaacctgtttgtattctttttttattgaatctgaatttagcagacatgttctttggtttgttttttcatatttcccagGACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTACAAAATTTAGTGATGTAAAAGGTGTTGATGAGGCAAAGGAAGAGCTGGAAGAAAT
|| | | || | || | |||| |||||||| | ||| || || ||| | || ||| |||||| | ||||| || || ||||| ||||| || || | |||||||| ||||||||||| ||||||||||| ||||| || || ||||||||
-------------gttagatattgttagagagttatattatct--tctgaattgaacag-----ctcattaacc-atttatgaattgaatgtagGCCTTGGTCTGAATGAGGAGGTTCAACCAAGCATTGAGTCTAAAACAAAATTCAGTGATGTAAAGGGTGTTGATGAAGCAAAATCTGAACTTGAAGAAAT
upper sequence: GLYMA17G34610.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G26140.1 (Arabidopsis thaliana), 3'ss of exon 4
gtattccttgttagtgtaacctgtttgtattcttttt--ttattgaat--ctgaatttagcagacatgttct--ttggtttgttttttcatatttcccagGACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTACAAAATTTAGTGATGTAAAAGGTGTTGATGAGGCAAAGGAAGAGCTGGAAGAAAT
|| | || |||| || | || | || ||| ||| ||| | ||| || || ||| | || ||| | |||||||||| | | ||||||||||||||||| ||||| || || || |||||| ||||||||| ||||||||||| ||||||| ||||| || |||||
-------------gtagagtttggttgtgttttcttcagtgatccaatagctgtattgaatgactttgtgctcattaatttatgctta-atacatgttagGACTTGGTTTGCACGAAGAAGTGCAACCTAGTATGGATTCGAGCACCAAATTTTCTGATGTAAAGGGTGTTGATGAAGCAAAGGCTGAGCTAGAGGAAAT
upper sequence: GLYMA17G34610.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0008g01170.t01 (Vitis vinifera), 3'ss of exon 4
-----------------------------------------------------gtattccttgttagtgta-acctgtttgtattctttttttattga-----atctgaatttagcagacatgttctttggtttgt---tttttcatatttcccagGACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTACAAAATTTAGTGATGTAAAAGGTGTTGATGAGGCAAAGGAAGAGCTGGAAGAAAT
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gtatttgtcttgatacttcaggtgctaccctctgaatacgattttatgccagatgaaacaacactaccctacgcctatcctcatcctctccccccaaacaaacatccccaccctctcttctttctctctctcatgtggttgttttccatgtttcagGACTTGGTCTAAATGAAGAGGTGCAACCTAGCATGGAATCAAATACAAAATTTAATGATGTAAAGGGTGTTGATGAGGCAAAAGCTGAGCTAGAAGAAATMapped 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|208152953|gb|GD949162.1|GD949162EST: CATGATTTCTGGTGTAGGAGCACTTATTGAAGATAAAGGAATTAGTAAAG GACTTGGTATAAATGAAGAAGAGCAACCTAGCATGGAATCAAGTAC
genomic: CATGATTTCTGGTGTAGGAGCACTTATTGAAGATAAAGGAATTAGTAAAGgtattccttg ... tatttcccagGACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTAC
EST:
gi|193354072|gb|FK320750.1|FK320750EST: CATGATTTCTGGTGTAGGAGCACTTATTGAAGATAAAGGAATTAGTAAAG GACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTACAAAAT
genomic: CATGATTTCTGGTGTAGGAGCACTTATTGAAGATAAAGGAATTAGTAAAGgtattccttg ... tatttcccagGACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTACAAAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgaatctgaatttagcagacatgttctttggtttgttttttcatatttcccagGACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTACAAAATTTAGTGATGTAAAAGGTGTTGATGAGGCAAAGGAAGAGCTGGAAGAAAT
ttttttcatatttccc CT-rich tract
tttgttttttcatatt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattccttgttagtgtaacctgtttgtattctttttttattgaatctgaatttagcagacatgttctttggtttgttttttcatatttcccagGACTTGGTATAAATGAAGAAGTGCAACCTAGCATGGAATCAAGTACAAAATTTAGTGATGTAAAAGGTGTTGATGAGGCAAAGGAAGAGCTGGAAGAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA