Sequence
atgc intronic sequence ATGC exonic sequencegtaccttttaattagcaatgaaattgttgtttctgaggacttggtgctatgttgatactaaatggtttatgttgatttatatctctttagGAATATACAGTTTTTCGGTCTTGAATCGCAGCATAAAGTAACTGGATCATATGTTGTGGTTATTGGACTTGGAGGTGTAGGGAGTCATGCTGCATCTATG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G37530.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G37530.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G085378_T02 (Zea mays), 3'ss of exon 3
----------------gtaccttttaattagcaatgaaattgttgtttctgaggacttggtgctatgttgatactaaatggtttatgttgatttatatctctttagGAATATACAGTTTTTCGGTCTTGAATCGCAGCATAAAGTAACTGGATCATATGTTGTGGTTATTGGACTTGGAGGTGTAGGGAGTCATGCTGCATCTATG
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ttctctaatgcgctgagtaccttg-agccgaatatgctcaggatatttctgt---tttcatgctgtgtttctgattaccaaaatctgtta--ctattgtaatgtagGAATATACAATTTTTTGGCATGGACTCTCAGAAGAAAGTGACTGAATCCTATGTTGTGGTTATTGGTCTTGGAGGGGTTGGCAGTCATGCAGCATCAATG
upper sequence: AT5G37530.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G085378_T03 (Zea mays), 3'ss of exon 3
gtaccttttaattagcaatgaaattgttgtttctgaggacttggtgctatgttgatactaaatggtttatgttgatttatatctctttagGAATATACAGTTTTTCGGTCTTGAATCGCAGCATAAAGTAACTGGATCATATGTTGTGGTTATTGGACTTGGAGGTGTAGGGAGTCATGCTGCATCTATG------------------------------------------------
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--------------------------------------------------------------------------tactattgtaatgtaggaatatacaattttttggcatggactctcagaagaaagtgactgaatcctatgttgtggttattggtcttggaggggttggcagTCATGCAGCATCAATGCTCCTGAGATCTGGTGTTGGCAGGTTGCTTCTTGTGGATTTTGATCAG
upper sequence: AT5G37530.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G41080.1 (Glycine max), 3'ss of exon 1
--------gtaccttttaattagcaatgaaattgttgtttctgaggacttggtgctatgttgatactaaatggtttatgttgatttatatctct----ttagGAATATACAGTTTTTCGGTCTTGAATCGCAGCATAAAGTAACTGGATCATATGTTGTGGTTATTGGACTTGGAGGTGTAGGGAGTCATGCTGCATCTATG
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tacattgggtgtacgtggat-ggcactttc-ttgttatatatcttttctaggatttctattaatccaactgtttttgggtggaatgttaatgctgtaactagGAACATTCAGTTTTTTGGCTTTGAGTCTCAGCAGAAAGTGACTGCATCATATGTAGTGGTCATTGGTCTTGGAGGTGTTGGTAGTCATGCTGCTTCTATG
upper sequence: AT5G37530.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA14G39360.1 (Glycine max), 3'ss of exon 1
------gtaccttttaattagcaatgaaattgttgtttctgaggac--ttggtgctatgttgatactaaatggtttatgttga----tttata-tctctttagGAATATACAGTTTTTCGGTCTTGAATCGCAGCATAAAGTAACTGGATCATATGTTGTGGTTATTGGACTTGGAGGTGTAGGGAGTCATGCTGCATCTATG
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cattgggtgtacatggat--ggaaccttcttgatatatctatcttttgttggacttctattaat-caaactgtttttgggtggaacgttaatgctgtgactagGAACGTTCAATTTTTTGGCTTTGAGTCTCAGCAGAAAGTGACTGCATCATATGTAGTGGTCATTGGTCTTGGAGGTGTTGGTAGTCATGCTGCTTCTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggacttggtgctatgttgatactaaatggtttatgttgatttatatctctttagGAATATACAGTTTTTCGGTCTTGAATCGCAGCATAAAGTAACTGGATCATATGTTGTGGTTATTGGACTTGGAGGTGTAGGGAGTCATGCTGCATCTATG
tatctcttt CT-rich tract
tttatgttgatttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccttttaattagcaatgaaattgttgtttctgaggacttggtgctatgttgatactaaatggtttatgttgatttatatctctttagGAATATACAGTTTTTCGGTCTTGAATCGCAGCATAAAGTAACTGGATCATATGTTGTGGTTATTGGACTTGGAGGTGTAGGGAGTCATGCTGCATCTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC