Sequence
atgc intronic sequence ATGC exonic sequencegtacaaatattattacactttgatttagccttacttggtgcatcgacaaattaaatgtatattctataattattttctgttatattctgtttttttcgtatatatgtagGTTGGTGAGCAGAGATACATGGTTACTTCGGAAGCTACTAAACAAGCACTAATCAGAAACGCAGGTTATGGAGGAAGATGTCTGTAGGGGAGCTTCAAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G10570.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G10570.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA01G02390.1 (Glycine max), 3'ss of exon 3
gtacaaatattattacactttgatttagccttacttggtgcatcgacaaattaaatgtatattctataattattttctgttatattctgtttttttcgtatatatgtagGTTGGTGAGCAGAGATACATGGTTACTTCGGAAGCTACTAAACAAGCACTAATCAGAAACGCAGGTTATGGAGGAAGATGTCTGTAGGGGAGCTTCAAAA
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gtttgta-attgtaacatattttagtggcctcaat--atttgtttacaggcttgaaatcaaacatgttatttacttct--tataacttattgttttcgtg-gtct-tagGCAGCAGAGCAGAGAAATTGTATGAACCAGGAAGAGATAAAGCAAGCACTATTCAGAAATGCAGGTTATGGTGGTAGATGTCTCTAGGAGAAAGATGGAA
upper sequence: AT5G10570.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G33590.2 (Glycine max), 3'ss of exon 3
gtacaaatattattacactttgatttagccttacttggtgcatcgacaaattaaatgtatattctataattattttctgttatattctgtttttttcgtatatatgtagGTTGGTGAGCAGAGATACATGGTTACTTCGGAAGCTACTAAACAAGCACTAATCAGAAACGCAGGTTATGGAGGAAGATGTCTGTAGGGGAGCTTCAAAA
|| | ||| | ||| || | ||| | | || | | | |||| | | || ||| || ||| | | |||||| || | || |||| ||||||||| | | | ||||| | || ||||||||| ||||||| ||||||||||| || |||||||| |||| || ||
gtttgca-attgtaacatattttagtggccccaatatttgtttacattcttgaaat-caaacatgttacttacttcttgtaacttattgttttcacggtctttagGTAGCA----GAGCAGAGAAATTGTATGAGCCAGGAAGAGATAAAGCAAGCACTATTCAGAAATGCAGGTTATGGTGGTAGATGTCTCTAGGAGAAAGATGGAA
upper sequence: AT5G10570.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv00s1312g00010.t01 (Vitis vinifera), 3'ss of exon 3
gtacaaatattattacactttgatttagccttacttggtgcatcgacaaattaaatgtatattctataattattttctgttatattctgtttttttcgtatatatgtagGTTGGTGAGCAGAGATACATGGTTACTTCGGAAGCTACTAAACAAGCACTAATCAGAAACGCAGGTTATGGAGGAAGATGTCTGTAGGGGA----GCTTCAAAA
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gtatgttgatcagatttctccactttatatttactttacatgct------ttaaat-catctgattcgtttgctttct---ctatttgttcttcatggtatgtatctaggtagTGGAGCAGCAGGCAGAGACTAATTCTGAAGATATAAAGCAAGCATTATTCAGAAATGCAGGCTATGGAGGAAGATGTCTGTAGAAGAAAAGGGATGAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtatattctataattattttctgttatattctgtttttttcgtatatatgtagGTTGGTGAGCAGAGATACATGGTTACTTCGGAAGCTACTAAACAAGCACTAATCAGAAACGCAGGTTATGGAGGAAGATGTCTGTAGGGGAGCTTCAAAA
tattctataattattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaaatattattacactttgatttagccttacttggtgcatcgacaaattaaatgtatattctataattattttctgttatattctgtttttttcgtatatatgtagGTTGGTGAGCAGAGATACATGGTTACTTCGGAAGCTACTAAACAAGCACTAATCAGAAACGCAGGTTATGGAGGAAGATGTCTGTAGGGGAGCTTCAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT