Sequence
atgc intronic sequence ATGC exonic sequencegtatttttttatcataaggtgtagatgttttatatccctgttttgctatttcaagaagtgaattttcttaaaaggtattttgtgaacagAAACCGTTAAGCTAATTCCTGAGCACCTGGTTACCTATAAAGTTTTTGGAGAACCTGAAGGCTCACATTATGCTCATTATGATTTGGTTGGAGGAAGGCT
Basic information
species | Glycine max |
transcript | GLYMA10G41630.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G41630.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g49760.3 (Oryza sativa), 3'ss of exon 7
----gtatttttttatca---taaggtgtagatgttttat-atccctgttttgctatttcaagaagtgaattttcttaaaaggtatttt---gtgaacagAAACCGTTAAGCTAATTCCTGAGCACCTGGTTACCTATAAAGTTTTTGGAGAACCTGAAGGCTCACATTATGCTCATTATGATTTGGTTGGAGGAAGGCT
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atgcatatactatgatctctctttggcttcattgtttgattatgtattttttagtttcttcataaatacatatcacaacaacattttcttgtatttgcagAAACGGTGAAGTTAATTCCTCAGCATTTGGTGACATATAAGGTTTTTGGAAAGCCCGAAGGCCCTCATTATGCGCATTATGACTTGGTTGGAGGGCGAAA
upper sequence: GLYMA10G41630.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G419024_T01 (Zea mays), 3'ss of exon 8
gtatttttttatcataaggtgtagatgtttta-tatccc---tgttttgctatttcaagaagtgaatttt-cttaaaaggtattt--tgtgaacagAAACCGTTAAGCTAATTCCTGAGCACCTGGTTACCTATAAAGTTTTTGGAGAACCTGAAGGCTCACATTATGCTCATTATGATTTGGTTGGAGGAAGGCT
| | | ||| | | || || || | || || ||| | | | | | || || ||||| | | |||||| || || || ||||| | ||| ||| ||||| ||| |||||| | || ||||| |||||||||| |||||||| ||||||||||| | ||
----gtaggcagtgcatggtttttgtcttctactagcttaattgcttcgctgtgtagattgctaatttcagtttgggctgtattcccttttcttagAAACTGTGAAACTCATTCCGAATCACAAGGTGGACTATAGAGTGTTTGGAAAGCCACAAGGCCCACATTATGCACATTATGACTTGGTTGGAGGCCGACT
upper sequence: GLYMA10G41630.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G346118_T02 (Zea mays), 3'ss of exon 6
gtatttttttatcataaggtgtagatgtttta-tatccc---tgttttgctatttcaagaagtgaatttt-cttaaaaggtattt--tgtgaacagAAACCGTTAAGCTAATTCCTGAGCACCTGGTTACCTATAAAGTTTTTGGAGAACCTGAAGGCTCACATTATGCTCATTATGATTTGGTTGGAGGAAGGCT
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----gtaggcagtgcatggtttttgtcttctactagcttaattgcttcgctgtgtagattgctaatttcagtttgggttgtattcccttttcttagAAACTGTGAAACTCATTCCGAATCACAAGGTGGACTATAGAGTGTTTGGAAAGCCACAAGGCCCACATTATGCACATTATGACTTGGTTGGAGGCCGACT
upper sequence: GLYMA10G41630.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G15060.1 (Arabidopsis thaliana), 3'ss of exon 7
--------gtatttttttatcataaggtgtagatgttttatatccctgttttgctatttcaagaagtgaattttcttaaaaggtattttgtgaa---cagAAACCGTTAAGCTAATTCCTGAGCACCTGGTTACCTATAAAGTTTTTGGAGAACCTGAAGGCTCACATTATGCTCATTATGATTTGGTTGGAGGAAGGCT
|| ||| || | || || ||| | | | |||| | | | | ||| || || || | |||| || |||||||| |||| ||| || |||| || ||||| | |||||||||| || || |||||||||| || |||||||||||||||||| | ||
cttttgtgatactttccacacacaccaaataaatttttaagctactcacacatgcattttcaccattatgactaattacaaatgcttgtgaatatggcagACACTGTTAAGCTGTTTCCGGAGAACTTGGTCACTTATAAGTTACTTGGAGAACCAGATGGACCACATTATGCACACTATGATTTGGTTGGAGGACGACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccctgttttgctatttcaagaagtgaattttcttaaaaggtattttgtgaacagAAACCGTTAAGCTAATTCCTGAGCACCTGGTTACCTATAAAGTTTTTGGAGAACCTGAAGGCTCACATTATGCTCATTATGATTTGGTTGGAGGAAGGCT
aattttcttaaaaggt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttttttatcataaggtgtagatgttttatatccctgttttgctatttcaagaagtgaattttcttaaaaggtattttgtgaacagAAACCGTTAAGCTAATTCCTGAGCACCTGGTTACCTATAAAGTTTTTGGAGAACCTGAAGGCTCACATTATGCTCATTATGATTTGGTTGGAGGAAGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA