Sequence
atgc intronic sequence ATGC exonic sequenceATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttttttgtttttcgttcttcttttgtagttgtgtcatggccataattcttgagtttcttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G73350.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os02g42540.1 (Oryza sativa), 5'ss of exon 3
ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttttttgtttttcgttcttcttttgtagttgtgtcatggccataattcttgagtttcttgtag
||||| ||||||||||||||||| ||||| || |||||||| ||||| |||| || |||||| | ||||| | | || | | || | || | | | || | | || || || ||
ATGCAGGAGGTTGCTGGTGAACGGGGAGGTTACCTTCATGGGCGAGGAGgtatt--tcatgctctctgtttttttgtatgaatctgtgtaggttcctcattaact--ttgttttatgtgtcgatgttttttcag
upper sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G146786_T01 (Zea mays), 5'ss of exon 3
ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttttttgtttttcgttcttcttttgtagttgtgtcatggccataattcttgagtttcttgtag
|||||||||||||||||||| | |||||||| ||||| |||||||| |||| | | ||| || | | | ||||||| | | | | | ||||| ||
ATGCAAGAGGTTGCTGGTGATAGGGGAGGCTACCTTCACGGACGAGGAGgtat-----ttcatgcttcttttataggaagacccctgtaaagtttgtagctcccttgttaaccttgttcttcag----------
upper sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G146786_T02 (Zea mays), 5'ss of exon 3
-------------------------------------ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttttttgtttttcgttcttcttttgtagttgtgtcatggccataattcttgagtttcttgtag
|||||||||||||||||||| | |||||||| ||||| |||||||| |||| | | ||| || | | | ||||||| | | | | | ||||| ||
GGATTTTGGTTCTCTACTCGGTGGTTGATACCAACAGATGCAAGAGGTTGCTGGTGATAGGGGAGGCTACCTTCACGGACGAGGAGgtat-----ttcatgcttcttttataggaagacccctgtaaagtttgtagctcccttgttaaccttgttcttcag----------
upper sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA16G33570.2 (Glycine max), 5'ss of exon 3
---------------------------------------ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttt-------tttgtttttcgttcttctt-ttgtagttgtgtcatggccataattcttgagtttcttgtag-------------
||||||||||||||||| || |||||||| || |||||||||||||||||||| ||| | || | ||||| | |||| | | |||| | || || | || ||||| ||| | ||
GGATATTGGCTTCCTGTATTGGGTGGCTGATGCAAGCAGATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCGgtacagctctttttcccctgcttttgtgtgtctgtgttgcttgcacttcccgcctcacatgcttctttagtttacttcttcccttt-taaaagtttaaatatgcag
upper sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA16G33570.1 (Glycine max), 5'ss of exon 3
ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttttt-------tgtttttcgttcttctt-ttgtagttgtgtcatggccataattcttgagtttcttgtag-------------
||||||||||||||||| || |||||||| || |||||||||||||||||||| ||| | || | ||||| | |||| | | |||| | || || | || ||||| ||| | ||
ATGCAAGAGGTTGCTGGGGAGCGTGGAGGTTACCTTCATGGACGAGGCGgtacagctctttttcccctgcttttgtgtgtctgtgttgcttgcacttcccgcctcacatgcttctttagtttacttcttcccttt-taaaagtttaaatatgcag
upper sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G28980.1 (Glycine max), 5'ss of exon 3
ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttttttgtttttcgttcttcttttgtagttgtgtcatggccataattcttgagtttcttgtag------------------------
||||||||||||||||| || || ||||| || |||||||||||||||||||| ||| | || | ||||| | | | || | ||| || ||| ||| ||||| ||||||||
ATGCAAGAGGTTGCTGGGGAGCGCGGAGGTTACCTTCATGGACGAGGCGgtacagttctttttcccctgcttttgtgtgtctgtgtgttgcttgcacttccgtttca----catgcttctttagtttctttcttcccttttaaagtttaaatgtgcag
upper sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G28980.2 (Glycine max), 5'ss of exon 3
---------------------------------------ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttttttgtttttcgttcttcttttgtagttgtgtcatggccataattcttgagtttcttgtag------------------------
||||||||||||||||| || || ||||| || |||||||||||||||||||| ||| | || | ||||| | | | || | ||| || ||| ||| ||||| ||||||||
GGATATTGGCTTCCTGTATTGGGTGGCTGATGCAAGCAGATGCAAGAGGTTGCTGGGGAGCGCGGAGGTTACCTTCATGGACGAGGCGgtacagttctttttcccctgcttttgtgtgtctgtgtgttgcttgcacttccgtttca----catgcttctttagtttctttcttcccttttaaagtttaaatgtgcag
upper sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv16s0039g00280.t01 (Vitis vinifera), 5'ss of exon 3
ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttttttgtttttcgttcttcttttgta-gttgtgtcatggccataattcttgagtttcttgtag-------------------------
|||||||||||||| || ||||||||||| || |||||||||||||||||||| ||||| |||||||| | |||||| |||| | ||| | | | | | || || ||| || |
ATGCAAGAGGTTGCAGGGGAACGTGGAGGTTACCTTCATGGACGAGGCGgtactg-tctctgcctctctctggctgggtttttggttcctttttccttcaatatatacctttagtttttttttgtttttttttgaattttggttaagtttgaatatgcag
upper sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S88_45V6.1 (Physcomitrella patens), 5'ss of exon 4
ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttttttgtttt-------tcgttcttcttttgtagttgtgtc---atggccataattcttgagtttcttgtag-------------------------------------------------------------------------
||||| ||||| |||||||||||||| || ||||||||||| || || ||||| || | | | | ||| | | | ||| | || | || || | || | | | | | || | |
ATGCAGGAGGTAGCTGGTGAACGTGGTGGATATCTTCATGGTCGTGGAGgtacagctcaaacaaagtttatatttacggaatcgagcaatggttatatttatagagatgaatttctatagagttgacgttgatgcttgtcatgtggactctattatgatgcttgtcatgtgttgattatcactgttgatatcatattggcattgataaaatgtgcag
upper sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S402_46V6.1 (Physcomitrella patens), 5'ss of exon 3
ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatct---ctctctctctctttttttgtttttcgttcttcttt-tgtagttgtgtcatggccataattcttgagtttcttgtag----------------------------------------------------------
||||| ||||| |||||||||||||| || ||||| ||||| ||||| ||||| || | || | | | ||| | | | | | || || | ||| | ||| | | || | ||||
ATGCAGGAGGTAGCTGGTGAACGTGGTGGATATCTGCATGGTCGAGGAGgtacagctcaaaacgctatttttagcacattgatatcctatgtactgcatgctgatgtttgatgcatgcagtgaa-gactccattgtgatggcggagtgtgttaattatcattgctgacctcttaatgcaattcatgaaatgcacag
upper sequence: AT1G73350.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ15111 (Selaginella moellendorffii), 5'ss of exon 3
ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttttttgtttttcgttcttcttttgtag----ttgtgtcatggccataattcttgagtttcttgtag--------------
||||||||||| || || ||||| ||||| ||| | ||||||||||||||||| ||| || || ||||| || | | |||| | | | | || | | | || | | || | | |
ATGCAAGAGGTAGCAGGGGAACGCGGAGGGTATTTGCATGGACGAGGCGgtactgttct---tcacttagtttttgaattccttgcatttctctaggaaaagctcgttttttttcttggttttctcacgttttcctgggaggttctttgcagMapped 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|116453294|gb|EG495886.1|EG495886EST: GATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCG CTTTAGATAGCGACGATTTACTTTATCTGAAAGAACAGATGGAAGCAGAGG
genomic: GATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatct ... tttcttgtagCTTTAGATAGCGACGATTTACTTTATCTGAAAGAACAGATGGAAGCAGAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGCAAGAGGTTGCTGGTGAACGTGGAGGCTATCTTCATGGACGAGGCGgtaccaatctctctctctctctttttttgtttttcgttcttcttttgtagttgtgtcatggccataattcttgagtttcttgtag
- GCAAGA
- - AAGAGG
- - - - - - - - - - - GTGGAG
- - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - CATGGA