Sequence
atgc intronic sequence ATGC exonic sequencegtaaatttccagcaacggtctcctgcaaatcagtgtcattgtcatgccaaaactaagattgttcacatgcttctatattggaatccttttgcagGTTGTGAAGAGTTTCTCATCCGGTAATAGGGAAGGAGGAGATTTTGTAGCAGCATGTGTATCTACAAAAGGAGATTGGATATACTGCATCGGCGAAGACA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G73720.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G73720.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GRMZM2G037683_T01 (Zea mays), 3'ss of exon 12
-----gtaaatttccagcaacggtctcctgcaaatcagtgtca-ttgtcatgccaaaactaagattgttcacatgcttctatattggaatccttttgcagGTTGTGAAGAGTTTCTCATCCGGTAATAGGGAAGGAGGAGATTTTGTAGCAGCATGTGTATCTACAAAAGGAGATTGGATATACTGCATCGGCGAAGACA
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tttaacaaaggctgtagaagataagcaaggcgaggatatctcagccatttaactgttatttctagtgcttggttatgattgccttgaaaatttgtttcagGTTGTGAAGAGTTTCTCATCAGGTAAGCGAGAAGGGGGAGATTTTGTTGCAGCTTCAGTTTCACCAAAAGGAGAATGGATATATTGTGTTGGTGAAGACA
upper sequence: AT1G73720.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA05G30430.2 (Glycine max), 3'ss of exon 13
-----gtaaatttccagcaacggtctcctgcaaatcagtgtcattgtc--atgccaaa--actaagattgttcacatgcttctatattggaatccttttgcagGTTGTGAAGAGTTTCTCATCCGGTAATAGGGAAGGAGGAGATTTTGTAGCAGCATGTGTATCTACAAAAGGAGATTGGATATACTGCATCGGCGAAGACA
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ttttcatcttttttta-caatgaagtgttgtagcagcatgttaggatctaattgcaaggtatgagaattgagttcatcatcatttctctga--caattgatagGTTGTGAAGAGCTTCTCATCTGGTAAAAGAGAAGGCGGAGACTTTGTTGCAGCCTGTGTTTCACCTAAAGGAGAATGGATTTACTGTGTTGGTGAAGACA
upper sequence: AT1G73720.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: GLYMA08G13560.2 (Glycine max), 3'ss of exon 13
-------gtaaatttccagcaacggtctcctgcaaatcagtgtcattgtcatgcca-aaactaagattgttcacatgcttctatattggaatccttttgcagGTTGTGAAGAGTTTCTCATCCGGTAATAGGGAAGGAGGAGATTTTGTAGCAGCATGTGTATCTACAAAAGGAGATTGGATATACTGCATCGGCGAAGACA
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ttcttttcttttgttcttacaatgaaatgttgtaacagcatgttaggatctgattgcaaggtatgagacttgagttcattatttgtctg--tcaattgatagGTTGTGAAGAGCTTCTCATCTGGTAAAAGAGAAGGCGGAGACTTTGTTGCAGCCTGTGTTTCACCTAAAGGAGAATGGATTTACTGTGTTGGTGAAGATA
upper sequence: AT1G73720.1 (Arabidopsis thaliana), 3'ss of exon 13
lower sequence: Vv17s0000g08930.t01 (Vitis vinifera), 3'ss of exon 13
gtaaatttccagcaacggtctcctgcaaatcagtgtcattgtcatgccaaaac-----taagattgttcacatgcttctatattggaatccttttg-----cagGTTGTGAAGAGTTTCTCATCCGGTAATAGGGAAGGAGGAGATTTTGTAGCAGCATGTGTATCTACAAAAGGAGATTGGATATACTGCATCGGCGAAGACA
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---ggtgcgtaaccaaggggaactacga-tcagaatggttgtgatttctaaatgtttgtgatgcaggttacttatcaaaaaaaaaaaaaatgtttgtgatgcagGTTGTGAAGAGCTTCTCTTCTGGTAAAAGAGAAGGTGGAGATTTTGTTGCAGCCTGTGTCTCACCCAAAGGAGAATGGATTTATTGTGTTGGTGAAGACAMapped 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|164181677|gb|ES129929.1|ES129929EST: TCTATATACATTATGACACTCCAAGGACAG GTTGTGAAGAGTTTCTCATCCGGTAATAGGGAAGGAGGAGATTT-GTAGCA
genomic: TCTATATACATTATGACACTCCAAGGACAGgtaaatttcc ... ccttttgcagGTTGTGAAGAGTTTCTCATCCGGTAATAGGGAAGGAGGAGATTTTGTAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcatgccaaaactaagattgttcacatgcttctatattggaatccttttgcagGTTGTGAAGAGTTTCTCATCCGGTAATAGGGAAGGAGGAGATTTTGTAGCAGCATGTGTATCTACAAAAGGAGATTGGATATACTGCATCGGCGAAGACA
tccttttgc CT-rich tract
ttctatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatttccagcaacggtctcctgcaaatcagtgtcattgtcatgccaaaactaagattgttcacatgcttctatattggaatccttttgcagGTTGTGAAGAGTTTCTCATCCGGTAATAGGGAAGGAGGAGATTTTGTAGCAGCATGTGTATCTACAAAAGGAGATTGGATATACTGCATCGGCGAAGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA