Sequence
atgc intronic sequence ATGC exonic sequencegtgaattctcgtatctcgttttttccttttttttttgggatcttttcctatgcactctgttttaccagctggatgttacgtatgtgttaacagAGATAGAGCTGGTGGATACACAAGAATGCTTCGTACTCGCATTCGTGTTGGTGATGCTGCCCCAATGGCCTATATCGA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G64650.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G64650.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G15680.1 (Glycine max), 3'ss of exon 4
gtgaattctcgtatctcgttttttccttttttttttgggatcttttcctatgcactctgttttaccagctggatgttacgtatgtgttaacagAGATAGAGCTGGTGGATACACAAGAATGCTTCGTACTCGCATTCGTGTTGGTGATGCTGCCCCAATGGCCTATATCGA
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------gtaagtaataaacctgatataatttcagttgtcagtttatggtagttag-ctgtaacactgaccagagattatgt-tatg----cagGGATAGAGCTGGGGGATACACCAGATTGCTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATCGA
upper sequence: AT5G64650.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G39250.1 (Glycine max), 3'ss of exon 4
gtgaattctcgtatctcgttttttccttttttttttgggatcttttcctatgcactctgttttaccagctggatgttacgtatgtgttaacagAGATAGAGCTGGTGGATACACAAGAATGCTTCGTACTCGCATTCGTGTTGGTGATGCTGCCCCAATGGCCTATATCGA
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------gtaagtaataaacctgatataatttcagttgtcagtttatggtagttag-ctgtaacactgaccagagattatgt-tatg----cagGGATAGAGCTGGAGGATACACCAGATTGCTTCGGACCCGTATTCGAGTGGGTGATGCTGCACCGATGGCCTATATTGA
upper sequence: AT5G64650.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv04s0044g00980.t01 (Vitis vinifera), 3'ss of exon 4
gtgaattctcgtatctcgttttttccttttttttttgggatcttttcctatgcactctgttttaccagctggatgttacgtatgtgttaacagAGATAGAGCTGGTGGATACACAAGAATGCTTCGTACTCGCATTCGTGTTGGTGATGCTGCCCCAATGGCCTATATCGA
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----------gtgaatcttaaacctgttgcattttcagttttcttttgtatgg---ttgtaatattggatgggcattctctgttt-----cagAGATAGAGCTGGTGGATATACAAGATTACTTCGAACTCGCATACGAGTTGGTGATGCTGCACCAATGGCCTATATTGAMapped 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|116397022|gb|EG439614.1|EG439614EST: GGAGATGATGTACTTCACAAGATTTTTACAGAATTGGCTCATCGATACAA AGATAGAGCTGGTGGATACACAAGAATGCTTCGTACTCGCATTCGTGTTGG
genomic: GGAGATGATGTACTTCACAAGATTTTTACAGAATTGGCTCATCGATACAAgtgaattctc ... gtgttaacagAGATAGAGCTGGTGGATACACAAGAATGCTTCGTACTCGCATTCGTGTTGG
EST:
gi|116397024|gb|EG439616.1|EG439616EST: GGAGATGATGTACTTCACAAGATTTTTACAGAATTGGCTCATCGATACAA AGATAGAGCTGGTGGATACACAAGAATGCTTCGTACTCGCATTCGTGTTGG
genomic: GGAGATGATGTACTTCACAAGATTTTTACAGAATTGGCTCATCGATACAAgtgaattctc ... gtgttaacagAGATAGAGCTGGTGGATACACAAGAATGCTTCGTACTCGCATTCGTGTTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcttttcctatgcactctgttttaccagctggatgttacgtatgtgttaacagAGATAGAGCTGGTGGATACACAAGAATGCTTCGTACTCGCATTCGTGTTGGTGATGCTGCCCCAATGGCCTATATCGA
tgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaattctcgtatctcgttttttccttttttttttgggatcttttcctatgcactctgttttaccagctggatgttacgtatgtgttaacagAGATAGAGCTGGTGGATACACAAGAATGCTTCGTACTCGCATTCGTGTTGGTGATGCTGCCCCAATGGCCTATATCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC