Sequence
atgc intronic sequence ATGC exonic sequencegtgagactttatttctgtcgattcatttttcatgatgatgatgatggtgatgatgatgattttgatgttctatgttctctgttagATTCTTGAAAGCTAGGAAATTTGATATTGGGAAAACCAAGTTAATGTGGAGTAATATGATCAAATGGAGAAAAGATTTTGGTACTGACACCATTTTCGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G75370.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G75370.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA17G37150.1 (Glycine max), 3'ss of exon 2
gtgagacttta------tttctgtcgattcatttttcatgatgatga--tgatggtgat-gatgatgattttgatgttctat------gttctctgttagATTCTTGAAAGCTAGGAAATTTGATATTGGGAAAACCAAGTTAATGTGGAGTAATATGATCAAATGGAGAAAAGATTTTGGTACTGACACCATTTTCGAG
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atggtatctttgcatattctcagtttacatgcttctaacacagatgacttgtttgccttagagtataatataaaacttgcattaactgatgctcttgcagATTCTTGAAAGCAAGGAAATTTGATATTGAGAAAGCGAAGCACATGTGGGCCAACATGATCCAATGGAGGAAAGAATATGGTACTGATACAATTATGGAG
upper sequence: AT1G75370.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA14G07850.1 (Glycine max), 3'ss of exon 2
gtgagactttatttctgtcgattcat--ttttcatgatgatgatgatggtgat------------gatgatgattttgatgttctatgttctc-tgtt--agATTCTTGAAAGCTAGGAAATTTGATATTGGGAAAACCAAGTTAATGTGGAGTAATATGATCAAATGGAGAAAAGATTTTGGTACTGACACCATTTTCGAG
|||| ||| | || ||||| ||| |||| | | | | ||| | || || | | || || || |||| |||||||||||||| |||||||||||||||| |||| | ||| |||||| || |||||| | ||||| ||||| | ||||||||| || ||| | |||
--gagatggtatctttgcatattcacagtttgcatgcttctaacacagatgacttgtttgccttaaagtataatataaaaattgaattaactgatgttgcagATTCTTGAAAGCAAGGAAATTTGATATTGAGAAAGCAAAGCACATGTGGGCCAACATGATCCACTGGAGGAAAGAATATGGTACTGATACAATTATGGAG
upper sequence: AT1G75370.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G03300.1 (Glycine max), 3'ss of exon 2
gtgagactttatttctgtcgattcatttttcatgatgatgatg-atggtgatgatgatgattttgatgttctatgttctctgttagATTCTTGAAAGCTAGGAAATTTGATATTGGGAAAACCAAGTTAATGTGGAGTAATATGATCAAATGGAGAAAAGATTTTGGTACTGACACCATTTTCGAG
| | || | | || | | | | | |||| || | | | || || || || |||||||||||||| ||||| |||||||||| |||| | ||| |||||| ||||||||| ||||||| ||||| | |||||| || || ||| | |||
----gttacaaaccctccttactagttagtggttacattcacatatggatatagtttaaaactgaattcaacatatttcttgc-agATTCTTGAAAGCAAGGAAGTTTGATATTGAGAAAGCAAAGCACATGTGGGCCAATATGATCCAATGGAGGAAAGAATATGGTACAGATACAATTATGGAGMapped 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|125043819|gb|EL116088.1|EL116088EST: CATCATGCTGAG ATTCTTGAAAGCTAGGAAATTTGATATTGGGAAAACCAAGTTAATGTG
genomic: CATCATGCTGAGgtgagacttt ... tctctgttagATTCTTGAAAGCTAGGAAATTTGATATTGGGAAAACCAAGTTAATGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgatgatgatgatggtgatgatgatgattttgatgttctatgttctctgttagATTCTTGAAAGCTAGGAAATTTGATATTGGGAAAACCAAGTTAATGTGGAGTAATATGATCAAATGGAGAAAAGATTTTGGTACTGACACCATTTTCGAG
ttttgat putative branch site (score: 4)
ttctctgtt putative PPT
atgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagactttatttctgtcgattcatttttcatgatgatgatgatggtgatgatgatgattttgatgttctatgttctctgttagATTCTTGAAAGCTAGGAAATTTGATATTGGGAAAACCAAGTTAATGTGGAGTAATATGATCAAATGGAGAAAAGATTTTGGTACTGACACCATTTTCGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA