Sequence
atgc intronic sequence ATGC exonic sequencegtaagtactctaacatatgatcataaaatcaaaatcaaagagaggttttgttgtggaagatgtgcttgacagatttcgtctgattgattctttggaagGTATTCATATATGGAGGAGTTGGTCCTTTGCATTCAGATGTTACTTTGGCCGGTGTTGCTAAGGCATTTGGAGTTCGCCTG
Basic information
| species | Arabidopsis thaliana |
| transcript | AT5G03430.1 |
| intron # | 10 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G03430.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA03G34140.1 (Glycine max), 3'ss of exon 9
gtaagtactctaacatatgatcataaaatcaaaatcaaaga-gaggttttgttgtggaagatgtgcttgacagatttcgtctgattgattctttggaagGTATTCATATATGGAGGAGTTGGTCCTTTGCATTCAGATGTTACTTTGGCCGGTGTTGCTAAGGCATTTGGAGTTCGCCTG
||| ||| | || | || | | | || | ||| || ||| || || | || ||| | | |||| | |||||| ||||||||||| || ||||| |||||||||||||||| | || || |||| || || ||||| ||||| ||
---------gtaagatacacgcttagattctattctatgcatgaattcttgatgataaagtgatggttcaggatatttacctggcctactttttgta-gGTATTTATATATGGAGGTGTAGGTCCACTGCATTCAGATGTTACCATAGCAGGCATTGCAAAAGCTTTTGGTGTTCGTTTG
upper sequence: AT5G03430.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA19G36860.1 (Glycine max), 3'ss of exon 10
gtaagtactctaacatatgatcataaaatcaaaatcaaagagaggttttgttgtggaagatgtgcttgacagatttcgtctgattgattctttggaagGTATTCATATATGGAGGAGTTGGTCCTTTGCATTCAGATGTTACTTTGGCCGGTGTTGCTAAGGCATTTGGAGTTCGCCTG
| | | | | || | || | | | | ||| || ||| || || | || ||| | |||| | |||||| ||||||||||| || ||||| ||||||||||||||| | || || |||| || || ||||| ||||| ||
-------gtaagatacacacgcttagagtctatgc---atgaatttcttgatgataaagtgatggttcaggatatttacctggcctacgttttgta-gGTATTTATATATGGAGGTGTAGGTCCACTGCATTCAGATGTTAGCATAGCAGGCATTGCAAAAGCTTTTGGTGTTCGTTTG
upper sequence: AT5G03430.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 10
gtaagtactctaacatatgatcataaaatcaaaatcaaagagaggttttgttgtggaagatgtgcttgacagatttcgtctga-ttgattctttggaagGTATTCATATATGGAGGAGTTGGTCCTTTGCATTCAGATGTTACTTTGGCCGGTGTTGCTAAGGCATTTGGAGTTCGCCTG
|||| || || || | || | | || || || | | | ||| | |||||| ||||| ||| | || |||| || |||||||| |||||||| ||||||||||||||||| || || ||||| || ||||| ||||| ||||| |||
gtaaaggcttaaatttactttaatgtgcaccgatagtttcctttgtgatggaatgaataagggtcttattttcctatgtctgagttgatcctt--gcagCTATTTATCTATGGAGGGGTTGGTCCATTGCATTCAGATGTTACATTAGCTGGTGTAGCAAAGGCTTTTGGTGTTCGTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttttgttgtggaagatgtgcttgacagatttcgtctgattgattctttggaagGTATTCATATATGGAGGAGTTGGTCCTTTGCATTCAGATGTTACTTTGGCCGGTGTTGCTAAGGCATTTGGAGTTCGCCTG
gattgat putative branch site (score: 4)
ttcttt CT-rich tract
attgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtactctaacatatgatcataaaatcaaaatcaaagagaggttttgttgtggaagatgtgcttgacagatttcgtctgattgattctttggaagGTATTCATATATGGAGGAGTTGGTCCTTTGCATTCAGATGTTACTTTGGCCGGTGTTGCTAAGGCATTTGGAGTTCGCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
