Sequence
atgc intronic sequence ATGC exonic sequencegtaaatccacattctcttaacaacttttatgtttactttgtttttcatgaatcttgtcatgattagttttattgttcagTTTGCTCACAGAGATTGCATTCAGACTTGGTGCAATGAGAAAGGAAATACAACTTGTGAAATATGTCTCCAG
Basic information
species | Glycine max |
transcript | GLYMA10G01680.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G01680.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G02610.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaaatccacattctcttaacaacttttatgtttactttgtttttca-tgaatcttgtcatgattagttttattg--ttcagTTTGCTCACAGAGATTGCATTCAGACTTGGTGCAATGAGAAAGGAAATACAACTTGTGAAATATGTCTCCAG
|||||| | | | | |||| ||||| || ||| | || ||| || |||| ||| || |||| ||||||||||||||||| || ||||| ||||||||||||| |||| ||||||||| |||||||||
gtaaatatcgaattctagatttatttttttgtttgattcttttgaaaaccgatattgattgttttggtttcgttggatttagTTCGCTCACAGAGATTGCATACAACGATGGTGTGATGAGAAAGGAAACACAATTTGTGAAATTTGTCTCCAG
upper sequence: GLYMA10G01680.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G02075.1 (Arabidopsis thaliana), 3'ss of exon 1
-------gtaaatccacattctcttaacaacttttatgtttactttgtttttcatgaatcttgtcatgattagttttatt-gttcagTTTGCTCACAGAGATTGCATTCAGACTTGGTGCAATGAGAAAGGAAATACAACTTGTGAAATATGTCTCCAG
| ||| || |||| ||| | | ||| | ||| || || || ||||| || | |||||| || || ||| | ||||| || |||||| ||||| |||||||| |||||||||||||| ||||| |||
gtaaaagaaccaaccaagaaaagaaaaaaactctta-actctcaaaatttgaaactaatggagttttgttttgttttgtttgatcagTTCGCACATAGAAACTGCATACAACGTTGGTGTAATGAAAAAGGAAACACAACTTGTGAAATCTGTCTTCAG
upper sequence: GLYMA10G01680.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0005g01360.t01 (Vitis vinifera), 3'ss of exon 1
---------gtaaatccacattctcttaacaacttttatgtttactttgtttttcatgaatcttgtcat----gattagttttattgt--tcagTTTGCTCACAGAGATTGCATTCAGACTTGGTGCAATGAGAAAGGAAATACAACTTGTGAAATATGTCTCCAG
| || ||| |||| || | | || ||| ||| | || | || | || ||||| |||| | |||||||||| |||||||| || |||| ||||||||||| ||||| || |||||||||||||| |||||||||
gtaaagaaagaaagggggtattttcttggttttgctttcgga-atttgaggtttggtgatttttctgatttgggttttgtttttttgtctttagTTTGCTCATAGAGATTGTATACAGAGGTGGTGCAATGAAAAAGGGAACACAACTTGTGAAATCTGTCTCCAGMapped 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|57575478|gb|CX548453.1|CX548453EST: AGAGCTCCAAAACCTTGGAAGCTCCTTGTGCTTGTTCTGGGACAGTTAAG TTTGCTCACAGAGATTGCATTCAGACTTGGTGCAATGAGAAAGGAAATACA
genomic: AGAGCTCCAAAACCTTGGAAGCTCCTTGTGCTTGTTCTGGGACAGTTAAGgtaaatccac ... tattgttcagTTTGCTCACAGAGATTGCATTCAGACTTGGTGCAATGAGAAAGGAAATACA
EST:
gi|15814766|gb|BI787041.1|BI787041EST: AGAGCTCCAAAACCTTGGAAGCTCCTTGTGCTTGTTCTGGGACAGTTAAG TTTGCTCACAGAGATTGCATTCAGACTTGGTGCAATGAGAAAGGAAATACA
genomic: AGAGCTCCAAAACCTTGGAAGCTCCTTGTGCTTGTTCTGGGACAGTTAAGgtaaatccac ... tattgttcagTTTGCTCACAGAGATTGCATTCAGACTTGGTGCAATGAGAAAGGAAATACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttatgtttactttgtttttcatgaatcttgtcatgattagttttattgttcagTTTGCTCACAGAGATTGCATTCAGACTTGGTGCAATGAGAAAGGAAATACAACTTGTGAAATATGTCTCCAG
ttttatt CT-rich tract
atgattagttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatccacattctcttaacaacttttatgtttactttgtttttcatgaatcttgtcatgattagttttattgttcagTTTGCTCACAGAGATTGCATTCAGACTTGGTGCAATGAGAAAGGAAATACAACTTGTGAAATATGTCTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA