Sequence
atgc intronic sequence ATGC exonic sequence...tttcatccattaggattaatgttgggctctcctaggagagccttcaatcagtataattaaaattgttttcattttctaagaattttgaatgactttgcagATTGAGATCAACACAGTTGATAGAACTGGAACATTCTTAGGTTCCTTATGGGAATCTAATATCAATGTGGCTTCGGTTCTTTTGGAGGCTGGTCTTGCTA
Basic information
species | Oryza sativa |
transcript | LOC_Os04g32960.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os04g32960.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GLYMA04G38010.1 (Glycine max), 3'ss of exon 12
tttcatccattaggattaatgttgggct-ctcctaggagagccttcaatcagtataattaaaattgttttcattttctaagaattttgaatgactttgcagATTGAGATCAACACAGTTGATAGAACTGGAACATTCTTAGGTTCCTTATGGGAATCTAATATCAATGTGGCTTCGGTTCTTTTGGAGGCTGGTCTTGCTA
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--------------------gtaaatcaattcctttctgaactttaggttcctgta--tgctgcttattttattgt-taaatattttgtattg-tttgcagATAGAGGTTGAAACCGTTGATAGAACTGGAACGTTCTTGGGATCCTTATGGGAGTCGAGGACCAATGTGGCAATTACACTGCTTGAAGCTGGTCTTGCAA
upper sequence: LOC_Os04g32960.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GLYMA06G17050.4 (Glycine max), 3'ss of exon 12
tttcatccattaggattaatgttgggct-ctcctaggagagccttcaatcagtataattaaaattgttttcattttctaagaattttgaatgactttgcagATTGAGATCAACACAGTTGATAGAACTGGAACATTCTTAGGTTCCTTATGGGAATCTAATATCAATGTGGCTTCGGTTCTTTTGGAGGCTGGTCTTGCTA
|| | |||| || | || || | || || |||| ||| | || | |||| | | ||||||||| ||| | | || |||||| |||||||||||||||| || ||||||||||| || | | ||| ||||| || | || |||||||| || |
--------------------gtaaatcaattcctttctgaactttagattcctgtatgcccgcttatttt-attgttaaatattttttatt--ttttgcagATAGAGGTTGAAACCGTTGATCGAACTGGAACATTCTTGGGATCCTTATGGGAGTCGAGGACCAACGTGGCAATTACACTGCTCGAAGCTGGTCTGGCAA
upper sequence: LOC_Os04g32960.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 12
tttcatccattaggattaatgttgggctctcctaggagagccttcaatcagtataattaaaattgttttcattttctaagaattttgaatgactttgcagATTGAGATCAACACAGTTGATAGAACTGGAACATTCTTAGGTTCCTTATGGGAATCTAATATCAATGTGGCTTCGGTTCTTTTGGAGGCTGGTCTTGCTA
| | | | |||| | | | | | || || | | |||| || || || || | | ||| ||||||||| | | || ||||| ||||||||||| ||||| |||||||||||||| || | | |||| |||| || | || ||||||||||| |
------------------gtaattaggtttcctctgtaaacttaaattcctccatgttgtcaatttttttcttaataaaatatattttttaatttt-cagATTGAGGTAGAGACTGTTGACAGAACTGGAACTTTCTTGGGTTCCTTATGGGAGTCAAGGACCAATATGGCAATTACACTGCTCGAAGCTGGTCTTGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcagtataattaaaattgttttcattttctaagaattttgaatgactttgcagATTGAGATCAACACAGTTGATAGAACTGGAACATTCTTAGGTTCCTTATGGGAATCTAATATCAATGTGGCTTCGGTTCTTTTGGAGGCTGGTCTTGCTA
tataattaaaattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcatccattaggattaatgttgggctctcctaggagagccttcaatcagtataattaaaattgttttcattttctaagaattttgaatgactttgcagATTGAGATCAACACAGTTGATAGAACTGGAACATTCTTAGGTTCCTTATGGGAATCTAATATCAATGTGGCTTCGGTTCTTTTGGAGGCTGGTCTTGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
-ttcatcc
- - - - - - - - -aatgttg
- - - - - - - - - - - - - - - - - - - -gccttca