Sequence
atgc intronic sequence ATGC exonic sequencegtaagttgtttagtaaaccttatgattgattttgttttgttttcgccatatgcgaacttttgtcattggatgcaaatactcttattattactcctagGTTCGTTGGTGTAGGTGAAGCTTCTTTCATTAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTCAAGAACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G22730.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G22730.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os04g44430.1 (Oryza sativa), 3'ss of exon 3
gtaagttgtttagtaaaccttatgattgattt-tgttttgttttcgccatatgcga--------acttttgtcattggatgca-aatactcttattattact-cctagGTTCGTTGGTGTAGGTGAAGCTTCTTTCATTAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTCAAGAACAG
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gtaagtaccttgtcattgtgaataatcaattcatgtttcagatctgttacttaaaataaatcttactctgataatgacacgaacaattctccaattattgttacttagGTTAGTTGGTGTTGGTGAAGCATCATTTATAAGTCTTGCAGCTCCATTCATTGATGATAATGCTCCAGCAGCACAG
upper sequence: AT2G22730.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G164743_T01 (Zea mays), 3'ss of exon 4
gtaagt-tgtttagtaaaccttatgattgattttgttttgttttcgccatatgcgaacttttgtcattggatgcaaatactcttattattactcctagGTTCGTTGGTGTAGGTGAAGCTTCTTTCATTAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTCAAGAACAG
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gtaagtatcattgctatatcaagtacctgctaagaaagatttattgctactcttctaatcacatggccatttattcaaacttttgatttgatactcagGTTTGTGGGCGTTGGCGAAGCTTCATTTATAAGTCTTGCAGCTCCATTTATTGATGACAATGCACCAGTAGCTCAG
upper sequence: AT2G22730.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G062024_T01 (Zea mays), 3'ss of exon 4
gtaagttgtttagtaaacctt---atgattgattttgttttgttttcgccatatgcgaacttttgtcattggatgcaaatactcttattattact----cctagGTTCGTTGGTGTAGGTGAAGCTTCTTTCATTAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTCAAGAACAG
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gtaagtgctttatcattgctaccaactatcaagtatctgttaagaaagattcattggcactcttctaatcacattgtcatttattcaaaatttttgaaactcagGTTTGTTGGCGTTGGCGAAGCTTCATTTATAAGTCTCGCAGCTCCATTCATTGATGACAATGCACCGGTAGCTCAG
upper sequence: AT2G22730.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA09G33680.1 (Glycine max), 3'ss of exon 4
----gtaagttgtttagtaa----accttatgattgattttgttttgttttcgccatatgcgaacttttgtcattggatgcaaatactcttattattactcctagGTTCGTTGGTGTAGGTGAAGCTTCTTTCATTAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTCAAGAACAG
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gtaagtgaatgttttggtactttcaacttttcaaagccttaatactttaccggtttcatgccatattttg--atttgagattgacagcagtttttttgc----agGCTAGTTGGTGTAGGTGAGGCTTCCTTCATAAGTCTTGCCGCACCATTTATAGATGACAATGCCCCTGATGCACAG
upper sequence: AT2G22730.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv07s0205g00120.t01 (Vitis vinifera), 3'ss of exon 4
---------------------------------gtaagttgtttagtaaaccttatgattgattt-tgttttgttttcgccatatgcgaacttttgtc----attgga-tgcaaatactcttattatta-----ctcctagGTTCGTTGGTGTAGGTGAAGCTTCTTTCATTAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTCAAGAACAG
| || |||| | | |||| || ||| | ||| || || || | || | | || || | | ||| | || ||||| |||||||| ||||| ||||| ||| | |||||||||||||||||||||||||||||||||||| |||
gtaagtgtaaaaatgccagcgctttttattttattttattatttatttattattattatatttttataagttgaatttttcaatcattgctttctttcttaaactagactgtgagccatagtatgggtgatgtcctttcagGTTGGTTGGTGTTGGTGAGGCTTCATTCGTAAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTGTCACTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcgccatatgcgaacttttgtcattggatgcaaatactcttattattactcctagGTTCGTTGGTGTAGGTGAAGCTTCTTTCATTAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTCAAGAACAG
ttactcct CT-rich tract
aaatactcttattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttgtttagtaaaccttatgattgattttgttttgttttcgccatatgcgaacttttgtcattggatgcaaatactcttattattactcctagGTTCGTTGGTGTAGGTGAAGCTTCTTTCATTAGTCTTGCAGCTCCATTTATAGATGACAATGCTCCTCAAGAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC