Sequence
atgc intronic sequence ATGC exonic sequenceTGGATCTGTTTACCATGGAAAATGGAAAGGCTCAGATGTTGCAATAAAGAGAATAAAAGCCAGCTGCTTTGCAGGCAAACCTTCGGAAAGGGAACGTTTGgtaaaatttcattcctttattatcaattgaatttaacatattgatcaacgtttaagtctagtataattcttttactgcttttctgctgttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G57610.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G57610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G01190.2 (Glycine max), 5'ss of exon 6
TGGATCTGTTTACCATGGAAAATGGAAAGGCTCAGATGTTGCAATAAAGAGAATAAAAGCCAGCTGCTTTGCAGGCAAACCTTCGGAAAGGGAACGTTTGgtaaaattt-cattcctttattatcaattgaatttaaca--tattgatcaacgtttaagtctagtataattcttttactgcttttctg---ctgttgcag
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TGGAGCTGTTTATCATGGGAAATGGAAAGGTTCTGACGTTGCCATTAAGAGAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTGgtattatttgtgtctaattgttttccttttgtttaagtaactgtagatttataccttgtagaataagaattttctaatctcagtcacaaatctcttgctc
upper sequence: AT5G57610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA17G07320.1 (Glycine max), 5'ss of exon 9
TGGATCTGTTTACCATGGAAAATGGAAAGGCTCAGATGTTGCAATAAAGAGAATAAAAGCCAGCTGCTTTGCAGGCAAACCTTCGGAAAGGGAACGTTTGgtaaaatttcattcctttattatcaattgaatttaacatattgatcaacgtttaagtctagt---ataattcttttactgcttttctgctgttgcag------
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TGGAGCTGTTTATCATGGGAAATGGAAAGGTTCCGACGTTGCCATTAAGAGAATAAAAGCCAGTTGTTTTGCTGGAAGGCCATCTGAAAGAGCAAGATTGgtattatttgtgttccttttgtttaagt---tttagaatgtggatttggatttaactcaaccccaaaaactaactcatgggatgaggattatccctcacttat
upper sequence: AT5G57610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv11s0052g01480.t01 (Vitis vinifera), 5'ss of exon 3
TGGATCTGTTTACCATGGAAAATGGAAAGGCTCAGATGTTGCAATAAAGAGAATAAAAGCCAGCTGCTTTGCAGGCAAACCTTCGGAAAGGGAACGTTTGgtaa-aatttcattcctttattatcaattgaatttaacatattgatcaacgtttaagtcta----gtataattcttttac-tgcttttctgctgttgcag--
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TGGAGCTGTTTACCATGGAAAATGGAAGGGGTCTGATGTAGCAATAAAGAGAATCAAAGCCAGCTGCTTTGCTGGGAGACCATCTGAAAGAGAACGTTTGgtagtaactgaatccttttaattataatt--tcttgttttatcagccacttttggtgtccaagtggtgcgatttttgcatatgattgcattatttttcatgt
upper sequence: AT5G57610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S131_116V6.1 (Physcomitrella patens), 5'ss of exon 4
TGGATCTGTTTACCATGGAAAATGGAAAGGCTCAGATGTTGCAATAAAGAGAATAAAAGCCAGCTGCTTTGCAGGCAAACCTTCGGAAAGGGAACGTTTGgtaaaatttcattcctttatt--atcaat---tgaatttaacatattgatcaacgtttaagtctagtataattctttta----ctgcttttct--gctgttgcag---------------------------------------------------------------
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TGGAACTGTGTATCATGGAAAATGGAGAGGCACAGATGTTGCTATCAAGCGAATCAAAGCCAGCTGTTTTGCTGGTCGGCCTGCAGAGAGAGATCGTCTGgtacagcatctgcaactaatccaatgaatacctgatcattaggcgcaattggatgaacaaactgaatattcctactttagaatcagcttttacaggatgtcgtcgaatcttttaccatgtcattttgatctgcttgtgttaataacatgtggttgatgtcttccgcagMapped 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|164066192|gb|ES150848.1|ES150848EST: GAATGAAAGCCAGCTGCTTTGCAGGCAAACCTTCGGAAAGGGAACGTTTG ATAGAAGATTTTTGGAAAGAAGCCCTGTTATTGAGCTCATTGCATCATCC
genomic: GAATAAAAGCCAGCTGCTTTGCAGGCAAACCTTCGGAAAGGGAACGTTTGgtaaaatttc ... gctgttgcagATAGAAGATTTTTGGAAAGAAGCCCTGTTATTGAGCTCATTGCATCATCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGATCTGTTTACCATGGAAAATGGAAAGGCTCAGATGTTGCAATAAAGAGAATAAAAGCCAGCTGCTTTGCAGGCAAACCTTCGGAAAGGGAACGTTTGgtaaaatttcattcctttattatcaattgaatttaacatattgatcaacgtttaagtctagtataattcttttactgcttttctgctgttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT