Sequence
atgc intronic sequence ATGC exonic sequence...aagtattcaatgcaaactgtttggttgtttcatgtttgatttgtttggtaagtatttcctctttgcgaaaggcttaggcttttgtttggtatattaacagGTGATGCACTGCACAGTTTGAGAGCTAATCTAGTTGATCCAAATAATGTCTTGCAAAGCTGGGATCCTACGCTTGTTAATCCGTGTACTTGGTTTCACGT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G34210.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G34210.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os08g07760.1 (Oryza sativa), 3'ss of exon 1
-----aagtattcaatgcaaactgtttg-gttgtttcatgtttgatttgtttggtaagtatttcctctttgcgaaaggcttaggcttttgtttggtatattaacagGTGATGCACTGCACAGTTTGAGAGCTAATCTAGTTGATCCAAATAATGTCTTGCAAAGCTGGGATCCTACGCTTGTTAATCCGTGTACTTGGTTTCACGT
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ctacacaacaattattagctactatttatgcacaatcctcattgattgtttggttaaattttattcacctgttgttgatacatgattctatt------attggcagGTGATGCATTGCATAGCTTGAGGACTAATTTAGTTGATCCTAATAATGTTCTACAAAGTTGGGACCCAACTCTGGTCAATCCGTGCACTTGGTTTCATGT
upper sequence: AT1G34210.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G150024_T03 (Zea mays), 3'ss of exon 1
aagtattcaatgcaaactgtttggttgtttcatgtttgatttgtttggtaagtatttcctctttgcgaaaggcttaggcttttgtt-tggtatattaacagGTGATGCACTGCACAGTTTGAGAGCTAATCTAGTTGATCCAAATAATGTCTTGCAAAGCTGGGATCCTACGCTTGTTAATCCGTGTACTTGGTTTCACGT
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-gattttgcatacaagctcatcacctgtagaatttcttatatgtttgttcatcttaactggaaatatacttgctgctgatcatgctaccttttgtccacagGCGATGCTCTATACAGCCTGCGGCAGAGCTTGATAGATACGAACAATGTCTTGCAGAGTTGGGATTCCACTCTTGTTAATCCATGTACATGGTTTCACGT
upper sequence: AT1G34210.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G115420_T01 (Zea mays), 3'ss of exon 1
aagtattcaatgcaaactgtttggttgtttcatgtttgatttgtttggtaagt---atttcctctttgcgaaaggcttaggcttttgtttggtatattaacagGTGATGCACTGCACAGTTTGAGAGCTAATCTAGTTGATCCAAATAATGTCTTGCAAAGCTGGGATCCTACGCTTGTTAATCCGTGTACTTGGTTTCACGT
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-tattttgcatacaagctcatcaccgataaaagttcttatctgtttgttcatcttaactgggaatatacttgctgctgataatgttacct--tttgtccacagGTGATGCCCTGTACAGCCTGCGTCAGAGCTTGAAAGATGCTAACAATGTCTTGCAGAGTTGGGATCCCACTCTTGTTAATCCATGTACATGGTTCCATGTMapped 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|163966526|gb|ES186125.1|ES186125EST: ACTGCTTCTTCTGTTTAATTCGTTATGGCTTGCCTCTTCTAACATGGAAG GTGATGCACTGCACAGTT
genomic: ACTGCTTCTTCTGTTTAATTCGTTATGGCTTGCCTCTTCTAACATGGAAGgtttgttact ... atattaacagGTGATGCACTGCACAGTT
EST:
gi|164178293|gb|EL971978.1|EL971978EST: ATGGCTTGCCTCTTCTAACATGGAAG GTGATGCACTGCACAGTTTGAGAGCTAATCTAGTTGATCCATATAATGTCT
genomic: ATGGCTTGCCTCTTCTAACATGGAAGgtttgttact ... atattaacagGTGATGCACTGCACAGTTTGAGAGCTAATCTAGTTGATCCAAATAATGTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtaagtatttcctctttgcgaaaggcttaggcttttgtttggtatattaacagGTGATGCACTGCACAGTTTGAGAGCTAATCTAGTTGATCCAAATAATGTCTTGCAAAGCTGGGATCCTACGCTTGTTAATCCGTGTACTTGGTTTCACGT
tatattaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagtattcaatgcaaactgtttggttgtttcatgtttgatttgtttggtaagtatttcctctttgcgaaaggcttaggcttttgtttggtatattaacagGTGATGCACTGCACAGTTTGAGAGCTAATCTAGTTGATCCAAATAATGTCTTGCAAAGCTGGGATCCTACGCTTGTTAATCCGTGTACTTGGTTTCACGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - -atgcaaa
- - - - - - - - -tgtttgg
- - - - - - - - - - - - - - - - tgtttga