Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttgttgcctagaactgaaaatatatgcttcgttattgattgtaacttgtttcagcaatgtgattttgttcttctgatggtgaaatatatcagGTCAAGCTCTCCACCTGCCAGAGATTAGTACTCTTGAACTACAACAAAGACACCAAGCTCATTGATTTCCGGCATTATTCTATAAGACTTCAGCCTGTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G61770.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G61770.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA12G03000.1 (Glycine max), 3'ss of exon 4
gtaagtttgttgcctagaactgaaaatatatgcttcgttattgattgtaacttgtttcagcaatgtgattttgttcttctgatggtgaaatatatcagGTCAAGCTCTCCACCTGCCAGAGATTAGTACTCTTGAACTACAACAAAGACACCAAGCTCATTGATTTCCGGCATTATTCTATAAGACTTCAGCCTGTTG
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gtgagtttatagggacacatacacaacaatgacttacttgacaatccaagtcc--ttca----------tctcttaatgtcacaacttgttatttcagGTTAAGCTCTCCACTTGCCAAAGAATTGTGTTGCTTAATTACAACAAAGACACTAAGCTCATTGATTTTCGGCATTATTCCATAAGATTACAACCTGTAG
upper sequence: AT5G61770.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA11G10700.1 (Glycine max), 3'ss of exon 4
gtaagtttgttgcctagaactgaaaatatatgcttcgttattgattg-taacttgtttcagcaatgtgattttgttcttctgatggtgaaa-----tatatcagGTCAAGCTCTCCACCTGCCAGAGATTAGTACTCTTGAACTACAACAAAGACACCAAGCTCATTGATTTCCGGCATTATTCTATAAGACTTCAGCCTGTTG
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-------------------gtgagtttataggcacacatacacatcaatgacttacttgacatccaagtccttcatctcctaatgtcacaacttgttatttcagGTTAAGCTCTCCACATGCCAAAGAATTGTGTTGCTTAATTACAACAAAGACACTAAGCTCATTGATTTTCGCCATTATTCCATAAGACTACAACCTGTAG
upper sequence: AT5G61770.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv07s0005g00470.t01 (Vitis vinifera), 3'ss of exon 4
gtaagtttgttgcctagaactgaaaatatatgcttcgttattgattgtaacttgtttcagcaatgtgattttgttcttctgatggtgaaatatatcagGTCAAGCTCTCCACCTGCCAGAGATTAGTACTCTTGAACTACAACAAAGACACCAAGCTCATTGATTTCCGGCATTATTCTATAAGACTTCAGCCTGTTG
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gtgagtgcttaggcaaatatcaatcaaat----tctggcaccagctggaataccttttccc--tgtcttaatgttatcttgatg--caaattttgcagGTGAAGCTTTCTTCCTGCCAAAGAATTGTGTTGCTTAATTACAATAAAGACACAAAGCTTATTGATTTTCGGCATTATTCCATTAGATTACAACCTGTTGMapped 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|125031695|gb|EL103964.1|EL103964EST: TGGCAACGATTATGTTTCAGAATATATTCCCAGCTATTGATATTAACACT GTCGAGCTCTCCACCTGCCAGAGAT
genomic: TGGCAACGATTATGTTTCAGAATATATTCCCAGCTATTGATATTAACACTgtaagtttgt ... aatatatcagGTCAAGCTCTCCACCTGCCAGAGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtaacttgtttcagcaatgtgattttgttcttctgatggtgaaatatatcagGTCAAGCTCTCCACCTGCCAGAGATTAGTACTCTTGAACTACAACAAAGACACCAAGCTCATTGATTTCCGGCATTATTCTATAAGACTTCAGCCTGTTG
tgaaatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttgttgcctagaactgaaaatatatgcttcgttattgattgtaacttgtttcagcaatgtgattttgttcttctgatggtgaaatatatcagGTCAAGCTCTCCACCTGCCAGAGATTAGTACTCTTGAACTACAACAAAGACACCAAGCTCATTGATTTCCGGCATTATTCTATAAGACTTCAGCCTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA