Sequence
atgc intronic sequence ATGC exonic sequencegtatgtttcttgctcgttaagcatatggcataaatgtccaagtacatatttgaagaaagtcgttactttgaatcatatgctgtagATAAACGGAATTGAGGCTCCAGAGAATATGCCAAAATGTATTAATAATTGTCACAACTTGGAAGGCTTTTGGAAAAACTGGCATGCTTCCTTCAACAAGT
Basic information
species | Glycine max |
transcript | GLYMA10G41940.2 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G41940.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv00s0581g00010.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------------------------------------------------------------------gtatgtttcttgctcgttaagcatatggcataaat----gtccaagtacatatttgaagaaagtcgttactttg-aatcatatg-ctgtagATAAACGGAATTGAGGCTCCAGAGAATATGCCAAAATGTATTAATAATTGTCACAACTTGGAAGGCTTTTGGAAAAACTGGCATGCTTCCTTCAACAAGT
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gtatgttcattgaaagtgtataattttcttttattttgtttttaattaaatctgtgttgtggatggactattattggatcagatttatctgaaatttcagtggtaacaaactttgagttttagattggtgtctgaacactcatgggaagaatttttttcctctataattatgtgattgtagATTTGTGGCATTGAGGCCCCTGAGAATATGCCAAGGTGTATCAATAATTGCTACAATTTGGAAAGTTTCTGGAAGAACTGGCATGCTTCCTTCAACAAAT
upper sequence: GLYMA10G41940.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv00s0449g00010.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------------------------------------------------------------gtatgtttcttgctcgttaagcatatggcataaat----gtccaagtacatatttgaagaaagtcgttactttg-aatcatatg-ctgtagATAAACGGAATTGAGGCTCCAGAGAATATGCCAAAATGTATTAATAATTGTCACAACTTGGAAGGCTTTTGGAAAAACTGGCATGCTTCCTTCAACAAGT
| | || || | || | | || || ||| | || || |||||| | || || | ||| || || ||||||| || |||||||| || ||||||||||||| ||||| |||||||| |||| |||||| | || ||||| | ||||||||||||||||||||| |
gtatgttcattgaaagtgtataattttcttttattttgtttttaattaaatctgtgttgtggatggactattattggatcagatttatctgaaatttcagtggtaacaaactttgagttttagattggtgtctgaacactcatgggaagaatttttttcctctataattatgtgattgtagATTTGTGGCATTGAGGCCCCTGAGAATATGCCAAGGTGTATCAATAATTGCTACAATTTGGAAAGTTTCTGGAAGAGCTGGCATGCTTCCTTCAACAAAT
upper sequence: GLYMA10G41940.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv00s0507g00020.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------------------------------------------------------------gtatgtttcttgctcgttaagcata-----tggcataaatgtccaagtacatatttgaagaaagtcgttactttg-aatcatatg-ctgtagATAAACGGAATTGAGGCTCCAGAGAATATGCCAAAATGTATTAATAATTGTCACAACTTGGAAGGCTTTTGGAAAAACTGGCATGCTTCCTTCAACAAGT
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gtatgttcattgaaagcgtataattttcttttattttgtttctaattaaatctgtgttgtggatggactattatttgaccatatatatctgaaatttcagtggtaacaaacttttagttttagaattggtgtctgaacactcatgggaagaatttttttcttctataattatgtgattgtagATTTGTGGCATTGAGGCCCCTGAGAATATGCCAAGGTGTATCAATAATTGCTACAACTTGGAAAGTTTCTGGAAGAACTGGCATGCTTCCTTCAACAAATMapped 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|58019147|gb|CX705889.1|CX705889EST: TGTGGCTAAAATTTTTACTGATCTGGCGCTTTTTCCGTTTCTGGTCACTG ATAAACGGAATTGAGGCTCCAGAGAATATGCCAAAATGTATTAATAATTGT
genomic: TGTGGCTAAAATTTTTACTGATCTGGCGCTTTTTCCGTTTCTGGTCACTGgtatgtttct ... tatgctgtagATAAACGGAATTGAGGCTCCAGAGAATATGCCAAAATGTATTAATAATTGT
EST:
gi|58018861|gb|CX705603.1|CX705603EST: TGTGGCTAAAATTTTTACTGATCTGGCGCTTTTTCCGTTTCTGGTCACTG ATAAACGGAATTGAGGCTCCAGAGAATATGCCAAAATGTATTAATAATTGT
genomic: TGTGGCTAAAATTTTTACTGATCTGGCGCTTTTTCCGTTTCTGGTCACTGgtatgtttct ... tatgctgtagATAAACGGAATTGAGGCTCCAGAGAATATGCCAAAATGTATTAATAATTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatgtccaagtacatatttgaagaaagtcgttactttgaatcatatgctgtagATAAACGGAATTGAGGCTCCAGAGAATATGCCAAAATGTATTAATAATTGTCACAACTTGGAAGGCTTTTGGAAAAACTGGCATGCTTCCTTCAACAAGT
tacatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtttcttgctcgttaagcatatggcataaatgtccaagtacatatttgaagaaagtcgttactttgaatcatatgctgtagATAAACGGAATTGAGGCTCCAGAGAATATGCCAAAATGTATTAATAATTGTCACAACTTGGAAGGCTTTTGGAAAAACTGGCATGCTTCCTTCAACAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG