Sequence
atgc intronic sequence ATGC exonic sequencegtttgttttttgattcttcctacctgtttttttggtgtattggctaatctgtttttttttgtgttgatcttatattctcttagattgaaatttgcagATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATTGGCTGTGGTGTGGCGAGCTTTGGTGCGTTTTTGATGCAGCGTAACACGA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G77260.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G09520.1 (Glycine max), 3'ss of exon 2
gtttgttttttgattcttcctacctgtttttttggtgtattggctaatctgtttttttttgtgttgatcttatattctcttagattgaaatttgcagATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATTGGCTGTGGTGTGGCGAGCTTTGGTGCGTTTTTGATGCAGCGTAACACGA
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---------------------gttagtctcttcaa---attcattctgatatttgttgctaaatatactgcgagctaatttgaaattgaatgtacagATGGTTCCTGAAATTGCATTTGGTCACAACACCAGAGTTGCTTTAGACGTTGGCTGTGGAGTGGCAAGTTTTGGTGCCTTTTTGATGCAACGTAATGTGA
upper sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA14G24900.1 (Glycine max), 3'ss of exon 2
gtttgttttttgattcttcctacctgtttttttggtgtattggctaatctgtttttttttgtgttgatcttatattctcttagattgaaatttgcagATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATTGGCTGTGGTGTGGCGAGCTTTGGTGCGTTTTTGATGCAGCGTAACACGA
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---------------------gttagtctcttatttaaattcgttctgatatttgttgctaacatactgagagctattttgaaattgaa-tgtgcagATGGTTCCTGAAATTGCATTTGGTCGCAACACCAGGGTTGCTTTAGACGTTGGCTGTGGAGTGGCAAGTTTTGGTGCTTTTTTGATGCAACGTAATGTGA
upper sequence: AT1G77260.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv18s0001g01600.t01 (Vitis vinifera), 3'ss of exon 2
gtttgttttttgattcttcctacctgtttttttggtgtattggctaatctgttttttt-ttgtgttgatcttatattctcttagattgaaatttgcagATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATTGGCTGTGGTGTGGCGAGCTTTGGTGCGTTTTTGATGCAGCGTAACACGA
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--------gttgaccatttctacaattctgacttg-gtattg-----tttgtatttacattgtattagtccc-catctttt--gacttgaatatgcagATGGTTCCTGACATTGCATTTGGTAACCACACCCGAGTTGTCTTGGACATTGGTTGTGGAGTGGCCAGTTTTGGTGCCTTTTTGCTGCAACGTAATGTGAMapped 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|164047931|gb|ES001147.1|ES001147EST: CCATGGANCTGATCAGTACTTAGACCAGATCTCCCAG ATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATT
genomic: CCATGGAGCTGATCAGTACTTAGACCAGATCTCCCAGgtttgttttt ... aaatttgcagATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATT
EST:
gi|163986449|gb|EL999276.1|EL999276EST: CCATGGAGCTGATCAGTACTTAGACCAGATCTCCCAG ATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATT
genomic: CCATGGAGCTGATCAGTACTTAGACCAGATCTCCCAGgtttgttttt ... aaatttgcagATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctaatctgtttttttttgtgttgatcttatattctcttagattgaaatttgcagATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATTGGCTGTGGTGTGGCGAGCTTTGGTGCGTTTTTGATGCAGCGTAACACGA
tttttttttgtgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttttttgattcttcctacctgtttttttggtgtattggctaatctgtttttttttgtgttgatcttatattctcttagattgaaatttgcagATGATTCCTGATATTACATTTGGATCACGCACCCGTGTTGCTTTGGACATTGGCTGTGGTGTGGCGAGCTTTGGTGCGTTTTTGATGCAGCGTAACACGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT