Sequence
atgc intronic sequence ATGC exonic sequencegtaaacaagatatatttcctgtattatgattaaattaaaaagctactagttttgttctctttaactgatgtgaggacaatatgttttcctttgattttgcagTTATGTTCACAGAGTTGGTAGAACAGCTAGGGCTGGAAGGGAAGGTTATGCTGTAACGTTTGTGACTGATAGTGACCGATCCCTTTTGAAAGTCATT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G16630.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G16630.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA18G11950.1 (Glycine max), 3'ss of exon 11
-----------------------------------------------------------------------------------------gtaaacaagatatatttcctgtattatgattaaattaaaaagctac--tagttttgttctctttaac----tgatgtgaggacaatatgttttcctttgattttgcagTTATGTTCACAGAGTTGGTAGAACAGCTAGGGCTGGAAGGGAAGGTTATGCTGTAACGTTTGTGACTGATAGTGACCGATCCCTTTTGAAAGTCATT
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gtacaatctatgatccatattggtagtaactctgcttgaaatgttgcgtgttattgacttcctgcattttttgtcactttccttcattgctacataagttacaatttatcatacacgattacatgttgatctcgccttaaacatgatctctttctctctatggattcctgataactttatctttttttattatgaagCTATGTTCATCGAGTTGGTCGTACTGCAAGAGCTGGAAGAGAAGGATATGCAGTCACTTTTGTGACTGACAATGACCGATCACTTTTAAAAGCCATT
upper sequence: AT4G16630.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA09G15220.1 (Glycine max), 3'ss of exon 10
---------------------------------------------------------------gtaaacaagatatatttcctgtattatgat-taaattaaaaa----gctactagttt-----tgttctctttaactg-atgtgag----gacaatatgttttcctttgattttgca----gTTATGTTCACAGAGTTGGTAGAACAGCTAGGGCTGGAAGGGAAGGTTATGCTGTAACGTTTGTGACTGATAGTGACCGATCCCTTTTGAAAGTCATT
| || | |||||| || | ||||| | ||| | | | || || ||||||| | | ||| || || ||| | ||| | | || || | | |||||||| |||| ||| | || || || || ||||| ||||| |||||||| || ||||||||||| | ||||||||| ||||| |||| ||||
gtataatctatgatccatattggtagtaactctgcttgaaatgttgtgtgttattgtcttcctgcaatttttgtcactttccttcgttgcaaaataaatgataaatgttgatctcaccttaaagatgatctctttctcagtatgggattcctgataatttatttatttatttttatgtattaagCTATGTTCATCGAGTGGGTCGTACTGCAAGAGCCGGAAGAGAAGGATATGCTGTCACTTTTGTGACTGACAATGACCGATCACTTTTAAAAGCCATT
upper sequence: AT4G16630.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA02G25240.1 (Glycine max), 3'ss of exon 11
---------------------------------------------------------------gtaaacaagatatatttcctgtattatgat-taaattaaaaa----gctactagttt----tgttctctttaactg-atgtgag----gacaatatgttt-----tcctttgattttgcagTTATGTTCACAGAGTTGGTAGAACAGCTAGGGCTGGAAGGGAAGGTTATGCTGTAACGTTTGTGACTGATAGTGACCGATCCCTTTTGAAAGTCATT
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gtataatctatgatccatattggtagtaactctgcttgaaatgttgtgtgttattgtcttcctgcagtttttgtcactttcctttgttgctacataaatgataaatgttgatctcaccttaacatgatctctttctctgtatgggattcctgataatttatttatttattttttatgtattaagCTATGTTCATCGAGTGGGTCGTACTGCAAGAGCCGGAAGAGAAGGATATGCTGTCACTTTTGTGACTGACAATGACCGATCACTTTTAAAAGCCATTMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|124723083|gb|EH814485.1|EH814485EST: ATTGGTGTTCAAACAGTTATAAATTATGCTTGTCCTCGGGAAATAGACAG TTATGTTCACAGAGTTGG
genomic: ATTGGTGTTCAAACAGTTATAAATTATGCTTGTCCTCGGGAAATAGACAGgtaaacaaga ... gattttgcagTTATGTTCACAGAGTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttttgttctctttaactgatgtgaggacaatatgttttcctttgattttgcagTTATGTTCACAGAGTTGGTAGAACAGCTAGGGCTGGAAGGGAAGGTTATGCTGTAACGTTTGTGACTGATAGTGACCGATCCCTTTTGAAAGTCATT
ttttcctttgatttt CT-rich tract
aatatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaacaagatatatttcctgtattatgattaaattaaaaagctactagttttgttctctttaactgatgtgaggacaatatgttttcctttgattttgcagTTATGTTCACAGAGTTGGTAGAACAGCTAGGGCTGGAAGGGAAGGTTATGCTGTAACGTTTGTGACTGATAGTGACCGATCCCTTTTGAAAGTCATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG