Sequence
atgc intronic sequence ATGC exonic sequenceCGTTGCAACTATTGATATTAATATGGGTTGCCCCAAGGCATTCTCTATCCAAGGTGGAATGGGTGCTGCTTTGTTAAGTAAACCCGAGCTAATTCATGATgtatgactctgtgaattcttagttatatgtttgtttcttactgatctattttaattgttcacctcatatggtatcttctccatcccag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G49640.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G49640.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G36840.1 (Glycine max), 5'ss of exon 4
CGTTGCAACTATTGATATTAATATGGGTTGCCCCAAGGCATTCTCTATCCAAGGTGGAATGGGTGCTGCTTTGTTAAGTAAACCCGAGCTAATTCATGATgtatgactctgtgaattcttagttatatgtttgtttcttactgatctattttaattgttcacctcatatggtatcttctccatcccag
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TGTTGCTGCAGTAGATATTAACATGGGTTGCCCGAAGTCATTTTCTGTGAGTGGTGGAATGGGTGCTGCTCTGTTGTCCAAACCAGAGCTTATTCATGATgtgagtctatataatctgttgtatttatgattgtgcttctgaaatgtgtttgaatccttc-ctccttaaaactccag-----------
upper sequence: AT3G49640.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv00s2044g00010.t01 (Vitis vinifera), 5'ss of exon 2
CGTTGCAACTATTGATATTAATATGGGTTGCCCCAAGGCATTCTCTATCCAAGGTGGAATGGGTGCTGCTTTGTTAAGTAAACCCGAGCTAATTCATGATgtatgac----------tctgtgaatt--cttagttatatgtttgtttcttactgatctattttaattgttcacctcatatggtatc-ttctccatcccag
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TGTTGCAGCGGTGGATATAAATATGGGTTGCCCCAAGTCATTCTCTATTAGTGGAGGCATGGGAGCTGCATTATTGACTAGACCTGAGCTTATTCATGATgtatgtcatgcatatcgtctggaaattgccttcttattttgtttataattagatgtttgcaattcatggttcaccatttctgctatcattgcttaatccag
upper sequence: AT3G49640.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv00s2201g00010.t01 (Vitis vinifera), 5'ss of exon 2
CGTTGCAACTATTGATATTAATATGGGTTGCCCCAAGGCATTCTCTATCCAAGGTGGAATGGGTGCTGCTTTGTTAAGTAAACCCGAGCTAATTCATGATgtatgac----------tctgtgaatt--cttagttatatgtttgtttcttactgatctattttaattgttcacctcatatggtatc-ttctccatcccag
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TGTTGCAGCGGTGGATATAAATATGGGTTGCCCCAAGTCATTCTCTATTAGTGGAGGCATGGGAGCTGCATTATTGACTAGACCTGAGCTTATTCATGATgtatgtcatgcatatcgtctggaaattgccttcttattttgtttataattagatgtttgcaattcatggttcaccatttctgctattattgcttaatccagMapped 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|124957978|gb|EL032759.1|EL032759EST: CTTTGTTAAGTAAACCCGAGCTAATTCATGAT ATTTTGGCAACACTTAAGAGGAACTTAGACGTACCGGTTACTTGCAAGATT
genomic: CTTTGTTAAGTAAACCCGAGCTAATTCATGATgtatgactct ... tccatcccagATTTTGGCAACACTTAAGAGGAACTTAGACGTACCGGTTACTTGCAAGATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGTTGCAACTATTGATATTAATATGGGTTGCCCCAAGGCATTCTCTATCCAAGGTGGAATGGGTGCTGCTTTGTTAAGTAAACCCGAGCTAATTCATGATgtatgactctgtgaattcttagttatatgtttgtttcttactgatctattttaattgttcacctcatatggtatcttctccatcccag
- - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT