Sequence
atgc intronic sequence ATGC exonic sequenceACTCTCTTATGACCCTAACCTTAGGCTTCCGTTGTGGCCTTCTGCAGACAATGCTAGGGAAGAGATTCTGAGCATTTGGGAGACTGCTGATATTATAAAGgtttattttttctatatatgtatggttacatttgcgtatattatctttcacttttgttcttgacctgaaacttgttgtctctgtttgataaaatgttcaag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G66430.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G66430.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA14G39670.1 (Glycine max), 5'ss of exon 2
ACTCTCTTATGACCCTAACCTTAGGCTTCCGTTGTGGCCTTCTGCAGACAATGCTAGGGAAGAGATTCTGAGCATTTGGGAGACTGCTGATATTATAAAGgtttattttttctatatatgtatggttacatttgcgtatattat---ctttcacttttgttcttgacctgaa--acttgttgtctctgtttgataaaatgttcaag---------------------------------------
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TCTGTCTTATGACCCTAACCTGAGGCTTCCGTTATGGCCTTCTGCGGATAGTGCAAGAGAAGGGATTCTGAGTATATGGGAGACTGCAGATATCATTAAGgttcctctcctatcaatagggccgaatgtatattctttagcaatagactttttcttgttccctttttcaagagtacagattacaagggaatggaaaaaaacagacaacaataccatctctaacaaccaatctgataattattcag
upper sequence: AT1G66430.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G41320.1 (Glycine max), 5'ss of exon 4
ACTCTCTTATGACCCTAACCTTAGGCTTCCGTTGTGGCCTTCTGCAGACAATGCTAGGGAAGAGATTCTGAGCATTTGGGAGACTGCTGATATTATAAAGgtttattttttctatata--------tgtatggt-tacatttgcgtatattatctttcacttttgttcttgacctgaaacttgttgtctctgtttgataaaatgttcaag-----------------------------------
|| ||||||||||||||||| |||||||| || ||||||||||| || | ||| || |||| |||||||| || ||||||||||| ||||| || |||||| ||| | | ||| | ||| | || | | || |||| | || ||| || | | | | ||| |||| | | |
TCTGTCTTATGACCCTAACCTGAGGCTTCCTTTATGGCCTTCTGCGGATAGTGCAAGAGAAGGAATTCTGAGTATATGGGAGACTGCAGATATCATTAAGgttcctttcctatcaatagggcagaatatatattctatagcaatagactttttcttgttccctttttcaggagtacagattacaagggaatgtggaataatagactacaataccatctctaacaactaatctgataattattcag
upper sequence: AT1G66430.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0006g01410.t01 (Vitis vinifera), 5'ss of exon 4
ACTCTCTTATGACCCTAACCTTAGGCTTCCGTTGTGGCCTTCTGCAGACAATGCTAGGGAAGAGATTCTGAGCATTTGGGAGACTGCTGATATTATAAAGgt--ttattttttctatatatgtatggttacatttgcg-tatattatctttcacttttgttcttgacctgaaacttgttgtctctgtttgata-aaatgttcaag-------------------------------------
| |||||||| || || || |||||||| ||||||| |||||||||| ||| ||||||| || |||||||| ||| | ||||||||||| |||||||| | || ||| || || | | | | | ||| | | ||| | | |||| ||| || ||||| | |
TGTGTCTTATGATCCCAATCTGAGGCTTCCTCTGTGGCCATCTGCAGACAGTGCCAGGGAAGGTATCCTGAGCATATGGAATACTGCTGATATCATAAAGgtagtcatcatttttaaatgcacaattgtgggctcacaatgcatttttctcaactctatctagaagactgaggtacaatgtgatgtaaaaatgtaaatggaaatgcccccttctgatggttacatactaaatttatcatcagMapped 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|124830312|gb|EH914768.1|EH914768EST: ATTCTGAGCATTTGGGAGACTGCTGATATTATAAAG ATAAGTGAAGAGGAGATTGTCTTTCTAACGAAAGGAGAAGATCCGTATGAT
genomic: ATTCTGAGCATTTGGGAGACTGCTGATATTATAAAGgtttattttt ... aatgttcaagATAAGTGAAGAGGAGATTGTCTTTCTAACGAAAGGAGAAGATCCGTATGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTCTCTTATGACCCTAACCTTAGGCTTCCGTTGTGGCCTTCTGCAGACAATGCTAGGGAAGAGATTCTGAGCATTTGGGAGACTGCTGATATTATAAAGgtttattttttctatatatgtatggttacatttgcgtatattatctttcacttttgttcttgacctgaaacttgttgtctctgtttgataaaatgttcaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT