Sequence
atgc intronic sequence ATGC exonic sequenceTTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatatcactgattctggtgtagtgtgtttgcacattgtttacttttaccctgaaatcatgttatctctgtgtaatatacaagtggtcaggttctaacttcgaacattttcatgcag
Basic information
species | Glycine max |
transcript | GLYMA08G45990.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G45990.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatatcactgattctggtgtagtgtgtttgcacattgtttacttttaccctgaaatcatgttatctctgtgtaatatacaagtggtcaggttctaacttcgaacattttcatgcag
|| |||||||| || |||||||| ||||| ||||||||||||||||||||| ||||||| ||||| || || || |||||||| || |||||||||||||||||| || ||| | | | ||||| | |||| | | || |||| | |||| | | || | ||
ATTTATTGCTGGAGTTGCTGATGATAATGGCTATGGCTGGGCAATAGCAAAAGCTCTTGCTGCAGCTGGTGCCGAGATTCTTGTTGGTACATGGGTACCTgtaagttgatctcattcac------gaagtgtat-----cattatagatgttctggtggaaacacttaattctcattctcatcttcag-----------------------------------
upper sequence: GLYMA08G45990.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os08g23810.2 (Oryza sativa), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatatcactgattctggtgtagtgtgtttgcacattgtttacttttaccctgaaatcatgttatctctgtgtaatatacaagtggtcaggttctaacttcgaacattttcatgcag
||||||||||| || |||||||||||||| |||||||||||||| ||||| ||||||| || || || |||||||||||||| || |||||||| ||||||||| || | | ||| || ||||| | | | | | | |||| || |||| ||| || || | |||||| || | |
GTTCATTGCTGGAGTTGCTGATGACAATGGCTATGGCTGGGCAATTGCAAAGGCTCTTGCTGCTGCTGGTGCTGAAATTCTTGTTGGTACATGGGTGCCTgtaagtggat----ccaactct--tgcagtgt---tcaatagggatcatttttttt-----------tttcctctttgtcattcacttaatggagagttctacctgcacag------------
upper sequence: GLYMA08G45990.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G125052_T01 (Zea mays), 5'ss of exon 1
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatatcactgattctggtgtagtgtgtttgcacattgtttacttttaccctgaaatcatgttatctctgtgtaatatacaagtg-gtcaggttctaacttcgaacattttcatgcag
||||||||||| || |||||||| ||||| ||||| |||||||| ||||| | ||||| || || || |||||||| ||||| || |||||||| || ||| || || | || | | | | | | ||||| | |||||| | ||| || ||| | |||| ||| | | | | |||
ATTCATTGCTGGAGTTGCTGATGATAATGGCTATGGATGGGCAATTGCAAAGGCACTTGCTGCGGCTGGTGCTGAAATGCTTGTTGGTACATGGGTGCCGgtatgttgat----cagactttta---aagatttctttgcattggtcacttttgct----gatc-cattgtct-tatgtagtattctactttgacag---------------------------
upper sequence: GLYMA08G45990.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G070422_T03 (Zea mays), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatatcactgattctggtgtagtgtgtttgcacattgtttacttttaccctgaaatcatgttatctctgtgtaatatacaagtg-gtcaggttctaacttcgaacattttcatgcag
||||||||||| || |||||||| ||||| ||||| |||||||| || || | ||||| || || || |||||||||||||| || |||||||| || ||| || || | || ||| | || | | | ||||| |||||| | ||| || ||| | |||| ||| | | | |||
ATTCATTGCTGGAGTTGCTGATGATAATGGCTATGGATGGGCAATTGCGAAGGCACTTGCTGCGGCTGGTGCTGAAATTCTTGTGGGTACATGGGTGCCGgtatgttgat----cagactct--tacag-atttctttgcattgaacacttttgct----gatcg-attgtct-tatgtagtattcttctttgacag---------------------------
upper sequence: GLYMA08G45990.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G05990.2 (Arabidopsis thaliana), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatatcactgattctggtgtagtgtgtttgca-cattgtttacttttaccctgaaatcatgttatctctgtgtaatatacaagtggtcaggttctaacttcgaacattttcatgcag
||||||||||||| | |||||||| ||||| ||||| ||||| ||||||||||||||||| || || ||||||||||| | || || || ||||| ||||||||| || || ||| | || | |||| | ||||| | | || ||| || | ||| || | | ||| ||
TTTCATTGCTGGTATAGCTGATGATAATGGCTATGGTTGGGCCATAGCAAAATCTCTTGCTGCTGCTGGAGCTGAAATATTGGTTGGGACTTGGGTTCCTgtaagt---catttttggttcagctgcttttagtttccttcattgctaaattatact----aacc----tatgaatggatggtctactag----------------------------------
upper sequence: GLYMA08G45990.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv06s0004g01310.t01 (Vitis vinifera), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatatcactgattctggtgtagtgtgtttgcacattgtttacttttaccctgaaatcatgttatctctgtgtaatatacaagtggtcaggtt-ctaacttcgaacattttcatgcag
|| ||||||||||| |||||||||||||||||||| ||||||||||| |||||||||||||| ||||| |||||||||||||| ||||||||||| |||||||||||| | | |||| | | | |||| | | |||| | | | | || | | | ||| ||| | | || |||||| ||| | | || ||
CTTTATTGCTGGTGTTGCTGATGACAATGGATATGGTTGGGCAATAGCCAAATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCACATGGGTTCCTgtaagtaaa--ttaatgatcaca------tatat-----cattctctgctttaatcacagagtaatctgagccatgt--------caaaccattggattactaactgggaagctccttgtgtag
upper sequence: GLYMA08G45990.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S29_256V6.1 (Physcomitrella patens), 5'ss of exon 2
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatatcactgattctggtgtagtgtgtttgcacattgtttacttttacc-ctgaaatcatgttatctctgtgtaatatacaagtggtcaggttctaacttcgaacattttcatgcag
|| ||||| |||||||| |||||| | || | ||||||||| || || ||| |||| |||||||| |||||||||||||||||||| || ||||| || ||||| | | | || || || | | || || ||| |||| | | | | ||||| | || | | || | | | || || | ||| ||||||
GTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGGCCATTGCCAAAGCTCTGGCAGCAGCTGGAGCTGAAATTCTTGTCGGAACCTGGGTGCCGgtaagctattttaac-----cttgttgaatttgattattcatcacc-acttgaattgccactcttaggttat---tatgacaagtttaatttgatcgagcctctttttggaca-----atgcag
upper sequence: GLYMA08G45990.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S99_59V6.1 (Physcomitrella patens), 5'ss of exon 3
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatatcac-tgattctggtgtagtgtgttt-gcacattgtttacttttaccctgaaatcatgttatctctgtgtaatatacaagtggtcaggttctaacttcgaacattttcatgcag
||||||||||||||||||||||| | || | ||||||||| || || ||| | || ||||||| ||||||||||| |||||||| || ||||| |||||| || | || ||||| | | | || ||| | || | | || | | | | || ||| | | | || | || | ||| ||||||
GTTCATTGCTGGTGTGGCTGATGATCAAGGTTTTGGCTGGGCTATTGCCAAAGCCCTGTCAGCAGCTGGAGCTGAAATCCTTGTCGGAACCTGGGTGCCTgtacgttctttgaacctgattgaatttttgatcattcagcagaactgctagtgctgttcttggtctactctg---cggagttttatttgatcgattttctttttcttttggaca-----atgcagMapped 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|8283272|gb|BE020833.1|BE020833EST: AATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCT GCTTTAAATATATTTGAGTCCAGTCTACGACGTGGAAAATTTGACGAGTCA
genomic: AATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaat ... tttcatgcagGCTTTAAATATATTTGAGTCCAGTCTACGACGTGGAAAATTTGACGAGTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTCATTGCTGGTGTGGCTGATGACAATGGATATGGCTGGGCAATAGCAAAATCTCTTGCAGCAGCAGGAGCTGAAATTCTTGTCGGCACATGGGTACCTgtaagtaaatatcactgattctggtgtagtgtgtttgcacattgtttacttttaccctgaaatcatgttatctctgtgtaatatacaagtggtcaggttctaacttcgaacattttcatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA