Sequence
atgc intronic sequence ATGC exonic sequence...cttaaaaaaaatatgatatttttcaatgttttttgtttaagatcaaatgttattgttttggtgaagctaaacactgataggtttgataaatatattacagACGGCGATACCAGTTATGGTAGGAACCAAGTTTGATGAGTTTATTCAGCTTCCTATTGATCTGCAATGGACAATTGCTAGCCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G21700.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G21700.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA06G46120.1 (Glycine max), 3'ss of exon 4
cttaaaaaaaatatgatatttttcaatgttttttgtttaagatcaaatgttattgttttggtgaagctaaacactgatag-gtttgataaata--tattacagACGGCGATACCAGTTATGGTAGGAACCAAGTTTGATGAGTTTATTCAGCTTCCTATTGATCTGCAATGGACAATTGCTAGCCAG
| |||| | |||| | | |||| | | | | | | | | | | | | |||| |||| | | | || ||||||| || ||||| || | ||||||||||||||||| || |||||||| ||||||||| |||||||||| || || | ||
------gtacatatatttatttttggaaccaatagcttaaattgtaggcatgtggatgcagaggaatgagaatgttatagtgttttgtgctcaatttttgtagACGGCAATCCCAGTGTTGATTGGAACCAAGTTTGATGATTTCATTCAGCTCCCTATTGATTTGCAATGGACCATAGCCAATGAG
upper sequence: AT3G21700.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G10670.1 (Glycine max), 3'ss of exon 4
cttaaaaaaaatatgatatttttcaatgttttttgtttaagatcaaa---tgttattgttttggtgaagctaaacactgataggttt---gataaatatattacagACGGCGATACCAGTTATGGTAGGAACCAAGTTTGATGAGTTTATTCAGCTTCCTATTGATCTGCAATGGACAATTGCTAGCCAG
| |||| || ||||| | | | |||| | | ||| || || | || | | |||| | ||||| | || ||||||| || ||||| || | ||||||||||||||||| || |||||||| ||||||||| |||||||||| || || | ||
------gtacatat-atgttttt-ggcacctatagcttaaattgtaggcgtgtggatgcagaggaatgggggaatgttaaagtgttttgcgctaaattt-ttgtagACGGCAATTCCAGTGTTGATTGGAACCAAGTTTGATGATTTCATTCAGCTCCCTATTGATTTGCAATGGACCATCGCCAATGAG
upper sequence: AT3G21700.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA06G46250.1 (Glycine max), 3'ss of exon 2
cttaaaaaaaatatgatatttttcaatgttttttgtttaagatcaaatgttattgttttggtgaagctaaacactgatag-gtttgataaata--tattacagACGGCGATACCAGTTATGGTAGGAACCAAGTTTGATGAGTTTATTCAGCTTCCTATTGATCTGCAATGGACAATTGCTAGCCAG
| |||| ||||| | | |||| | | | | | | | | | | | |||| |||| | | | || ||||| | || ||||| || | ||||||||||||||||| || |||||||| ||||||| |||||||||| || || | ||
----gtacgtatatttatttttttggcaccaatagcttaaattgtaggcatgtggatgcaaaggaatgagaatgttatagtgttttgtgctcaatttttgtagACGACAATTCCAGTGTTGATTGGAACCAAGTTTGATGATTTCATTCAGCTCTGTATTGATTTGCAATGGACCATAGCCAATGAGMapped 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|86078966|gb|DR374723.1|DR374723EST: AGTCAAATCAG ACGGCGATACCAGTTMTGGTAGGAACCAAGTTTGATGAGTTTATTCAGCTT
genomic: AGTCTAATCAGgtaatattaa ... tatattacagACGGCGATACCAGTTATGGTAGGAACCAAGTTTGATGAGTTTATTCAGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgttattgttttggtgaagctaaacactgataggtttgataaatatattacagACGGCGATACCAGTTATGGTAGGAACCAAGTTTGATGAGTTTATTCAGCTTCCTATTGATCTGCAATGGACAATTGCTAGCCAG
ataggtttgataaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttaaaaaaaatatgatatttttcaatgttttttgtttaagatcaaatgttattgttttggtgaagctaaacactgataggtttgataaatatattacagACGGCGATACCAGTTATGGTAGGAACCAAGTTTGATGAGTTTATTCAGCTTCCTATTGATCTGCAATGGACAATTGCTAGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT