Sequence
atgc intronic sequence ATGC exonic sequencegttctaatatcaccttctaggttctttatcttcaagattgctgatatcgatatgttacttgatggatgtttctaatgaaaatattgcttgtagGTGAGAAAAGAAAGAAGTTGGAAGAAGAGAAGGGAATTATTATACGGTTTGTGATTGGTCATAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G32430.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G32430.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA12G31980.1 (Glycine max), 3'ss of exon 4
------gttctaatatcaccttctag--gttctttatcttcaagattgctgatatcgat-atgttacttgatggatgtttctaatgaaaatattgcttgtagGTGAGAAAAGAAAGAAGTTGGAAGAAGAGAAGGGAATTATTATACGGTTTGTGATTGGTCATAG
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gttcatatttgttccttgtttcctagttattttctgtttttttgttctattttattggccgtagtttcttataatgtgttcttctgataat-tgataaatagGTGAGAAAAGAAAGAAGCTAGAGGAAGAAAAGGGAATTATCATCCGATTTGTAATTGGTCATAG
upper sequence: AT2G32430.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA13G38500.1 (Glycine max), 3'ss of exon 4
-----------------------------------------gttctaatat-caccttctaggttctttatcttcaagattgctgatatcgatatgttacttgatg-gatgt-ttctaatgaaaatattgcttgtagGTGAGAAAAGAAAGAAGTTGGAAGAAGAGAAGGGAATTATTATACGGTTTGTGATTGGTCATAG
|||| ||| | || | | | ||| || | ||| | || || || |||| |||| ||| || || | ||||||||||||||||||| || || ||||||||||| ||||| || || ||||| |||||||||||
gttcataatttcatgatttttcatccttgcttcctagttattttctgctatacttttttttatatgtatattttttctgtctactttattggc-cgtagtttcttgtaatgtattcttgtgataacatggtacatagGTGAGAAAAGAAAGAAATTAGAGGAAGAGAAGGGCATTATCATCCGATTTGTAATTGGTCATAG
upper sequence: AT2G32430.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 4
--------------------gttctaatatca----ccttctaggttctttatcttcaagatt-gctgatatcgatatgttacttgatggatgtttctaatgaaa-atattgcttgtagGTGAGAAAAGAAAGAAGTTGGAAGAAGAGAAGGGAATTATTATACGGTTTGTGATTGGTCATAG
||||| | ||| | || || || | | || ||| | ||| | | | | ||||||| || || | || | ||||||| ||||| |||||| |||| ||||||||||| ||||| || || ||||| |||||||||||
gttcatggatgtttctttgctttctattcctggagttcttttttcttattcatatcttattttagcttcttattggatgatgtcttacgattgtttcttctggaacacatggaaaatagGTGAAAAAAGGAAGAAGCTGGAGGAAGAGAAGGGCATTATCATTCGCTTTGTCATTGGTCATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctgatatcgatatgttacttgatggatgtttctaatgaaaatattgcttgtagGTGAGAAAAGAAAGAAGTTGGAAGAAGAGAAGGGAATTATTATACGGTTTGTGATTGGTCATAG
ttctaat putative branch site (score: 2)
tttctaatgaaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttctaatatcaccttctaggttctttatcttcaagattgctgatatcgatatgttacttgatggatgtttctaatgaaaatattgcttgtagGTGAGAAAAGAAAGAAGTTGGAAGAAGAGAAGGGAATTATTATACGGTTTGTGATTGGTCATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA