Sequence
atgc intronic sequence ATGC exonic sequencegtttgtttattctctaaccagttgattttaattcttaatgattaaattaatgtgtatgttcctaataaaatgattcaactttattgcaataatgcagACATCATCAGCATGGTCGATGGCAGGCACGAATTGGAAGAGTTGCAGGCAACAAAGACCTTTATCTTGGCACATTTA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G57390.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G57390.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G07010.1 (Glycine max), 3'ss of exon 7
-----------gtttgtttattctctaac--cagttga-----ttttaattcttaatgattaaattaatgtgtatgttcctaataaaatgattcaactttattgcaataatgcagACATCATCAGCATGGTCGATGGCAGGCACGAATTGGAAGAGTTGCAGGCAACAAAGACCTTTATCTTGGCACATTTA
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gtatttgtctagtactttcacgttttaacgttatgtggcctctttttcattcattttggctg--ctagcggatatctttttgattc--tgaatgaataaaaataaattgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAACAAAGACCTCTACCTTGGCACTTTCA
upper sequence: AT5G57390.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G00950.1 (Glycine max), 3'ss of exon 7
-----------gtttgtttattctctaac--cagttga-----ttttaattcttaatgattaaattaatgtgtatgttcctaataaaatgattcaactttattgcaataatgcagACATCATCAGCATGGTCGATGGCAGGCACGAATTGGAAGAGTTGCAGGCAACAAAGACCTTTATCTTGGCACATTTA
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gtatttgtctagtactttcacgttttaacgttatgtggcctctttttcattcattttggtcg--ctagcggatatctttcttgtttc-tgaatgaa-taaaatacattgattcagACACCACCAGCATGGCCGATGGCAGGCGAGAATAGGCAGAGTTGCCGGAAACAAAGACCTCTACCTTGGAACTTTCA
upper sequence: AT5G57390.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv11s0052g00840.t01 (Vitis vinifera), 3'ss of exon 7
--gtttgtttattctctaaccagttgattttaattcttaatgattaaattaatgtgtatgttcctaataaaatgattcaactttattgcaataatgcagACATCATCAGCATGGTCGATGGCAGGCACGAATTGGAAGAGTTGCAGGCAACAAAGACCTTTATCTTGGCACATTTA
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gtaggtttctaacctccaacccacaaat----atcccga--gacgccatgaata--aatactcttaatatt----tttatttttgctgtac-----cagACACCATCAGCATGGGAGATGGCAAGCCAGAATAGGAAGAGTTGCTGGGAACAAAGATCTCTATCTTGGAACATTCAMapped 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|164224490|gb|ES178391.1|ES178391EST: GAGGCGTCACTAG ACATCATCAGCATGGTCGATGGCAGGCACGAATTGGAAGAGTTG
genomic: GAGGCGTCACTAGgtttgtttat ... aataatgcagACATCATCAGCATGGTCGATGGCAGGCACGAATTGGAAGAGTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaattaatgtgtatgttcctaataaaatgattcaactttattgcaataatgcagACATCATCAGCATGGTCGATGGCAGGCACGAATTGGAAGAGTTGCAGGCAACAAAGACCTTTATCTTGGCACATTTA
tcctaat putative branch site (score: 2)
taataaaatgattcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtttattctctaaccagttgattttaattcttaatgattaaattaatgtgtatgttcctaataaaatgattcaactttattgcaataatgcagACATCATCAGCATGGTCGATGGCAGGCACGAATTGGAAGAGTTGCAGGCAACAAAGACCTTTATCTTGGCACATTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA