Sequence
atgc intronic sequence ATGC exonic sequencegtataggccgacaaatcctgattcaatagagaataaagactaaaaaaataggaagtagagtaagaggaatgttgtcgctttcagGTGATGGTTTGTGGGATTCTTCTGGTAGTGATGGCAGTTGGGAACTTCATAAATACAGTAGAGACACTGATGGCAAAGTCAAGAGTTAAGGCAAAGATGA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G10430.2 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G10430.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA10G44190.3 (Glycine max), 3'ss of exon 8
------------------------------------gtataggccgacaaatc--ctgattcaatagagaataaagactaaaaaaataggaagtagag--------------taagaggaatgttgtcgcttt---cagGTGATGGTTTGTGGGATTCTTCTGGTAGTGATGGCAGTTGGGAACTTCATAAATACAGTAGAGACACTGATGGCAAAGTCAAGAGTTAAGGCAAAGATGA
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gtactagtttgtttatccttgctactttacttcactttgtacaccaattgattgattggaacagaagaaaataaatccaGTAATATTTTGTTGCATAGATTAGCCTTAGCCTTTATAATGATAGAAGCTCTTCGGGCAGGTAATATTTTGCGGTGTTCTGTTGGTCTTAATGGCTGTTGGGAACTTTGCAAATACAGTACAGACTCTGATGGCAAAATCAAGATTTAAGGCAAAGATGA
upper sequence: AT4G10430.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA20G38960.1 (Glycine max), 3'ss of exon 9
------------------------------------gtataggccgacaaatc--ctgattcaatagagaataaagactaaaaaa---------atagg--aagtagagtaagaggaatgttgtcgcttt-----cagGTGATGGTTTGTGGGATTCTTCTGGTAGTGATGGCAGTTGGGAACTTCATAAATACAGTAGAGACACTGATGGCAAAGTCAAGAGTTAAGGCAAAGATGA
| || | | || || || || |||||| | || | |||| | | || | | || | || | ||||| || |||| || | || |||| | ||||| ||||||||||| |||||||||| |||| ||||||||||| |||||| |||||||||||||||
gtactagttcgtttgtccttgttacttgactttattttgtacatcaattgattgattggaacagaagcaaataaatccaGTAATATTTTGTTGCATAGATTAGCCATAGCCTTATAATTGATAGAACTCTTCGGGCAGGTAATATTTTGCGGTGTCCTGTTGGTCTTAATGGCTGTTGGGAACTTTGCAAATACAGTACAGACTCTGATGGCAAAATCAAGATTTAAGGCAAAGATGA
upper sequence: AT4G10430.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA20G38960.2 (Glycine max), 3'ss of exon 10
---------gtataggccga--caaatcctgattcaatagagaataaagactaaaaaaataggaagtagagtaagaggaatgttgtcgctttcag-
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gtacagactctgatggcaaaatcaagatttaaggcaaagatgagaagaagcaagagcaagcagaggctgaattagcaagctgtcactttttttagttttgataggatcaggattttttgcactcatttcagttttgaccacagTGCAAGCTGGTGATAATTTTGGCTTGTTGTAGCATCAATCATTTACAAGTTTAAGCATAAACATAAATTTGGATTAAAATGATATTACGATACTACAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaataaagactaaaaaaataggaagtagagtaagaggaatgttgtcgctttcagGTGATGGTTTGTGGGATTCTTCTGGTAGTGATGGCAGTTGGGAACTTCATAAATACAGTAGAGACACTGATGGCAAAGTCAAGAGTTAAGGCAAAGATGA
gactaaa putative branch site (score: 2)
tcgctttc putative PPT
aaagactaaaaaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataggccgacaaatcctgattcaatagagaataaagactaaaaaaataggaagtagagtaagaggaatgttgtcgctttcagGTGATGGTTTGTGGGATTCTTCTGGTAGTGATGGCAGTTGGGAACTTCATAAATACAGTAGAGACACTGATGGCAAAGTCAAGAGTTAAGGCAAAGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG