Sequence
atgc intronic sequence ATGC exonic sequencegtaatcctaacgtgcccatctttcaagcaactaactatacatcgcagtaatggaaaataacaggaaattttgcttacagGTTCGACTTGAGCACATTCTTGAGAGGATATCATTGATTTCTGATGCTGCAAGCACCGAGCGTCCCTCTCAGATCACGGATTATTTGTATATTGGTGGTG
Basic information
species | Oryza sativa |
transcript | LOC_Os01g24470.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g24470.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G061684_T01 (Zea mays), 3'ss of exon 7
gtaatcctaacgtgcccatctttcaagcaactaactatacatcgcagtaatggaaaataacaggaaattttgcttacagGTTCGACTTGAGCACATTCTTGAGAGGATATCATTGATTTCTGATGCTGCAAGCACCGAGCGTCCCTCTCAGATCACGGATTATTTGTATATTGGTGGTG
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gtaaatctaa-atgtaca-ctctgtactaactacgtgtaca---cattaattgaacctatcgagcaattctgttgttagGTTCGACTTGAGCACATTCTCGAGAGGATATCTTTGATCTCTGATGCTGCAAGTACTGAGCGTCCATCACAGATCACAGATTATCTGTATATTGGTGGTG
upper sequence: LOC_Os01g24470.2 (Oryza sativa), 3'ss of exon 6
lower sequence: AT5G23720.2 (Arabidopsis thaliana), 3'ss of exon 8
-------------------------gtaatcct-aacgtgcccatctttcaagcaactaactatacatcgcagtaatggaaaataacagg--------aaattttgctt----acagGTTCGACTTGAGCACATTCTTGAGAGGATATCATTGATTTCTGATGCTGCAAGCACCGAGCGTCCCTCTCAGATCACGGATTATTTGTATATTGGTGGTG
| ||||| || || | || || | | || | | | | | | || || ||| | ||| ||||||| |||||||||| |||||||||||||||||||||||| | ||||| | || ||| || || ||| || || | | ||| || || |
gtatcatgaagttttattatttccttttatcctgaatatgatcttcattatataatatagtttttggcaactgaactcaaacattgtctctcttgtttgcattctccttgataacagGTTAGACTTGAGCATATTCTTGAGAGGATATCATTGATTAGCAAAGCTGCTAATACAGAGAAACCATCAATGATACAAGAAAATCTTTTTATCGGGGGAG
upper sequence: LOC_Os01g24470.2 (Oryza sativa), 3'ss of exon 6
lower sequence: Vv17s0000g00360.t01 (Vitis vinifera), 3'ss of exon 8
-------------gtaatcctaacgtgcccatctttcaagcaactaactatacatcgcag-taatggaaaataacaggaaattttg----cttacagGTTCGACTTGAGCACATTCTTGAGAGGATATCATTGATTTCTGATGCTGCAAGCACCGAGCGTCCCTCTCAGATCACGGATTATTTGTATATTGGTGGTG
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gtaagattttctgtcaactcttgtgatctaacttttctgctgaatttttacagagcccaaattattccttttctttccatgttttttgatcttacagGTCAGGCTTGAGCACATTCTTGAGAGGATAGCATTGATATCTGATGCTGCAAATACAGAGCGACCATCTTCAATTACAGCGAGTCTCTTCATTGGTGGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagcaactaactatacatcgcagtaatggaaaataacaggaaattttgcttacagGTTCGACTTGAGCACATTCTTGAGAGGATATCATTGATTTCTGATGCTGCAAGCACCGAGCGTCCCTCTCAGATCACGGATTATTTGTATATTGGTGGTG
ttttgctt CT-rich tract
aaaataaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcctaacgtgcccatctttcaagcaactaactatacatcgcagtaatggaaaataacaggaaattttgcttacagGTTCGACTTGAGCACATTCTTGAGAGGATATCATTGATTTCTGATGCTGCAAGCACCGAGCGTCCCTCTCAGATCACGGATTATTTGTATATTGGTGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG