Sequence
atgc intronic sequence ATGC exonic sequence...gtacatgattggttgttccaactttgcaaattgcttaagttggctgtatatcatttcttttgttggttagaattgcactgaatggttccttttttgacagGTTTGCGATGAGCTTGAGGACGTGATGGAAGAAGGTGGTATACTAGTAGATTACCATGGATGTGATTTCTTTCCAGAACGTTGGTTTGACCTTGTAGTTG
Basic information
species | Oryza sativa |
transcript | LOC_Os07g22950.3 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g22950.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G032699_T02 (Zea mays), 3'ss of exon 1
gtacatgattggttgttccaactttgcaaattgcttaagttggctgtatatcat-ttcttttgttggttagaattgcactg-aatggttccttttttgacagGTTTGCGATGAGCTTGAGGACGTGATGGAAGAAGGTGGTATACTAGTAGATTACCATGGATGTGATTTCTTTCCAGAACGTTGGTTTGACCTTGTAGTTG
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atcttttatt--ttgaacaagcaaagcttcctggttcccttgtttacgtttggggttctataatttgctgaattgttgctataatatatatttttgccgcagGTGTGCGACGAGCTTGAGGACATGATGGAAGAAGGTGGCATACTAGTAGATTACCACGGATGTGATTTCTTTCCAGAACGTTGGTTTGACCTCGTAGTTG
upper sequence: LOC_Os07g22950.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA02G08350.1 (Glycine max), 3'ss of exon 2
gtacatgattggttgttccaactttgcaaattgcttaa-gttggctgtatatcatttcttttgttggttagaattgca--ctgaatggttccttttttgacagGTTTGCGATGAGCTTGAGGACGTGATGGAAGAAGGTGGTATACTAGTAGATTACCATGGATGTGATTTCTTTCCAGAACGTTGGTTTGACCTTGTAGTTG
|||| | || || || ||| ||| | ||| | | | | | |||| || | | ||| ||| |||| || ||||| |||||||| || |||||||| || || | | || || |||||||| |||||||||||||| || ||||||||||| || ||||
---tttgatattatcctcatcattgacacatttcttgtcatcttgtgtgtgctgcctgatatataggtttattttacgagtttaatttgcatggtttctgtagGTCTGTGATGAACTTGAGGATGTTATGGAAGAGGGGGGAAACATTGTGGACTACCATGGCTGTGATTTCTTTCCCGAGCGTTGGTTTGATTGCGTGGTTG
upper sequence: LOC_Os07g22950.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA16G27430.1 (Glycine max), 3'ss of exon 2
--gtacatgattggttgttccaactttgcaaattgcttaa--gttggctgtatatcatttcttttgttggttagaattgcactgaatggttccttttttgacagGTTTGCGATGAGCTTGAGGACGTGATGGAAGAAGGTGGTATACTAGTAGATTACCATGGATGTGATTTCTTTCCAGAACGTTGGTTTGACCTTGTAGTTG
| || | | | || | ||| | || | | ||||| | | ||| | |||| | | | | | | |||||| ||||||| ||||| |||||||| || |||||||| || || | | || || |||||||| |||||||||||||| || ||||||||||| || ||||
tttaatattaatattatcctcatcattgatacttttcttgtcatcatgtgtatgttgcctgatttataggttttatgtctatt---ttgcatggtttttg-tagGTTTGTGATGAACTTGAGGATGTTATGGAAGAGGGGGGAAACATTGTGGACTACCATGGCTGTGATTTCTTTCCTGAGCGTTGGTTTGATTGCGTGGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatatcatttcttttgttggttagaattgcactgaatggttccttttttgacagGTTTGCGATGAGCTTGAGGACGTGATGGAAGAAGGTGGTATACTAGTAGATTACCATGGATGTGATTTCTTTCCAGAACGTTGGTTTGACCTTGTAGTTG
ttcctttttt CT-rich tract
atttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacatgattggttgttccaactttgcaaattgcttaagttggctgtatatcatttcttttgttggttagaattgcactgaatggttccttttttgacagGTTTGCGATGAGCTTGAGGACGTGATGGAAGAAGGTGGTATACTAGTAGATTACCATGGATGTGATTTCTTTCCAGAACGTTGGTTTGACCTTGTAGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA