Sequence
atgc intronic sequence ATGC exonic sequencegtgagtagtcttgtaccctctgaaatttctcacaattctgaataattgatcttggagttagcagagttgttaatgaagtgatttcttatgtgaaatgtgcttctatgtttttgtttgcctaactgtgatgtgttattcagGTTGGAGATTCTGATCAGAAACTAGCAGATGGAATTACGACATATTCTATCATAGCAGATTCTTATGGAAGAGCATCCATTATTGGTCCTCTTGTAACG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G22330.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G22330.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G45030.1 (Glycine max), 3'ss of exon 3
gtgagtagtcttgtaccctctgaaatttctcacaattctgaataattgatcttggagttagcagagttgttaatgaagtgatttcttatgtgaaatgtgcttctatgtttttgtttgcctaactgtgatgtgttattcagGTTGGAGATTCTGATCAGAAACTAGCAGATGGAATTACGACATATTCTATCATAGCAGATTCTTATGGAAGAGCATCCATTATTGGTCCTCTTGTAACG
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------------------------------------aataagtttataatatctaaatgtacata-tagtttgtgcatgtgtgcgcaagctagcacatggtagttactttttaattggaaacttattg-gtgctgt--agGTTGGAGATTCTGATCAGAAATTGGCAGATGGAATTTCACTGTACTCCATTGCAACTGATTTGTATGTTAAAGCGGGAATTCTTGCACCTCTAATAACA
upper sequence: AT3G22330.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA14G03760.1 (Glycine max), 3'ss of exon 3
gtgagtagtcttgtaccctctgaaatttctcacaattctgaataattgatcttggagttagcagagttgttaatgaagtgatttcttatgtgaa-atgtgcttctatgtttttgtttgcctaactgtgatgtgttattcagGTTGGAGATTCTGATCAGAAACTAGCAGATGGAATTACGACATATTCTATCATAGCAGATTCTTATGGAAGAGCATCCATTATTGGTCCTCTTGTAACG
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------------------------------------aataagtttattatatctaaatgtacata-tagtttgtgca-tgtgtgcgcaagtgagcacatggtagttactttttaattggaaacttattg-gtgctgt--agGTTGGAGATTCTGATCAGAAGTTGGCAGATGGAATTTCACTGTACTCCATTGCAACTGATTTGTATGTTAAAGCGGGAATTCTTGCTCCTCTAATAACG
upper sequence: AT3G22330.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G41510.1 (Glycine max), 3'ss of exon 4
gtgagtagtcttgtaccctctgaaatttctcacaattctgaataattgatcttggagttagcagagttgttaatgaagtgatttcttatgtgaaatg-tgcttctatgtttttgtttgcctaactgtgatgtgttattcagGTTGGAGATTCTGATCAGAAACTAGCAGATGGAATTACGACATATTCTATCATAGCAGATTCTTATGGAAGAGCATCCATTATTGGTCCTCTTGTAACG
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------------------------------aagaatcaagagtaaataa------gaatgcttgag--attaatgtgctgaatccttatattgattggtattggtaataacttaactgggaacttattg-gtgccat--agGTTGGAGATTCTGATCAGAAGTTGGCAGATGGAATTTCGTTGTACTCTATTGTGTCTGATTCGTACACTAAAGCAGGAATTCTTGCACCTCTGATAACAMapped 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|164196411|gb|ES094301.1|ES094301EST: TCAGATCTCTCACTAAGAAGTACCTGAATAATCCTTTGACAGCTGATCTT GTTGGAGATTC
genomic: TCAGATCTCTCACTAAGAAGTACCTGAATAATCCTTTGACAGTTGATCTTgtgagtagtc ... tgttattcagGTTGGAGATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgtgaaatgtgcttctatgtttttgtttgcctaactgtgatgtgttattcagGTTGGAGATTCTGATCAGAAACTAGCAGATGGAATTACGACATATTCTATCATAGCAGATTCTTATGGAAGAGCATCCATTATTGGTCCTCTTGTAACG
gcctaac putative branch site (score: 2)
tatgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtagtcttgtaccctctgaaatttctcacaattctgaataattgatcttggagttagcagagttgttaatgaagtgatttcttatgtgaaatgtgcttctatgtttttgtttgcctaactgtgatgtgttattcagGTTGGAGATTCTGATCAGAAACTAGCAGATGGAATTACGACATATTCTATCATAGCAGATTCTTATGGAAGAGCATCCATTATTGGTCCTCTTGTAACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA