Sequence
atgc intronic sequence ATGC exonic sequenceAATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCGgtatgtccaaaagggaaaacagttcttttgatgatttcatcatctcggttgagttttaaagaaatgtgttttgtgattgttctgaggaagattttctgacacttacctgcgtcattcttgttcttgtacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G05780.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G368908_T02 (Zea mays), 5'ss of exon 5
AATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCGgtatgtccaaaagggaaaacagttcttttgatgatttcatcatctcggttgagttttaaagaaatgtgttttgtgattgttctgaggaagattttctgacacttacctgcgtcattcttgttcttgtacag
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AATGCTACACAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCTGCTCATGAAGTTGAGGAAATTGgta------------agacttgttgatctgat-actgcatgaac-------aacaaaaaggatatgtggatt----ttactatctagatggtgttgtcaaatgt-----catcatttataggctccttc--
upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G061745_T03 (Zea mays), 5'ss of exon 5
AATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCGgtatgtccaaaagggaaaacagttcttttgatgatttcatcatctcggttgagttttaaagaaatgtgttttgtgattgttctgaggaagattttctgacacttacctgcgtcattcttgttcttgtacag
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AATGCAACTCAGAAAAGTCAGAAGGTATTTGTCCATGTTCCTTCAGAAATTGCAGCTCATGAAGTTGAGGAAATTGgtaagacttgttgatctg-catgaacaacaaccaaaaagttatatggattttactatcgagatggtattgttaaaattgttttcaagtcggacgacttgct------------------------------
upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G34980.1 (Glycine max), 5'ss of exon 5
AATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCGgtatgtc-------caaaagggaaaacagttcttttgatgatttcat--catctcggttgagttttaaagaaatgtgttttgtgattgttctgaggaagatt-------ttctgacacttacctgcgtcattctt-gttcttgtacag---------------------
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AATGCCACTCAAAAAAGTCAAAAAGTGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAGgtatttcatgccattcaatgtaaaaactggtcttttttttcttatgttttgtttttattttgtttgattcaaaatttctatatgaaaattcttaattttatccataccattgtgtaacctgtttctcctgttttttgtttttttttaaattcttcttacctttgtgcag
upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 5
-AATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCGgtatgtccaa------aagggaaaacag------ttcttttgatgatttcatcat-ctcggttgagttttaaag----aaatgtgttttgtgattgttctgaggaagattttctgac-acttacctgcgtcattcttgttcttgtacag---------
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GAATGCCACTCAAAAAAGTCAAAAGGTGTTTGTGCATGTGCCATCAGAGATTGCTGCTCATGAAGTTGAGGAAATAggtatttcatgccattcaatgtaaaactgatgtttttcttcttatgttttgtttatattttgtttgattcaaaatttctatatgaaaattctgaattttatccatacaattgtgtaaccagtttctcctgttttttttaattcttcttacctttgtgca
upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv08s0007g01980.t01 (Vitis vinifera), 5'ss of exon 5
AATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCGgtatgtccaaaagggaaaa--------cagttcttttgatgatttcatcatctcggttgagttttaaag--aaatgtgttttgtgattgttctgaggaagattttctgacacttacctgcgtcattcttgttcttgtacag-----------
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AATGCTACCCAGAAAAGCCAGAAGGTTTTTGTCCATGTCCCATCTGAAATTGCTGCTCATGAAGTTGAGGAAATTGgtatgtcatgagccgaaaagcttcttattttcctcttagcaatgctttttccctttccgtattctgaacttgaagatgcaaattgactttatcatgaattatttacctttttgaaccttcagtaattaacttcatgtgtcacctttccctag
upper sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv02s0025g01490.t01 (Vitis vinifera), 5'ss of exon 5
AATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCGgtatgtccaaaagggaaaacagttcttttgat----gatttcatcatctcggttgagttttaaagaaatgtgttttgtgattg--ttctgaggaagattttctgacacttacctgcgtcattcttgttcttgtacag-------------
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AATGCCACTCAGAAAAGCCAGAAAGTTTTTGTCCACATACCTTCTGAAATTGCTGCTCATGAAGTTGAGGAAATTGgtatgtcaagctgaaaaactacttattttcctcttagaagtgttcctttcccttttcctattctgaactcaaagacacaattgaatttatatatggattgtttaac-tttgaatctttaatgataaacttcctacatcacctgccaatagMapped 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|47831858|gb|CK121542.1|CK121542EST: TTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCG GCGTGGAGCATTTGCTCAGGGATGTGAAAGACACAACAATCAGTACCCTCG
genomic: TTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCGgtatgtccaa ... tcttgtacagGCGTGGAGCATTTGCTCAGGGATGTGAAAGACACAACAATCAGTACCCTCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATGCTACTCAGAAAAGCCAGAAAGTTTTCGTTCATGTGTCTACAGAAATTGCTGCTCATGAAGTTGAGGAAATCGgtatgtccaaaagggaaaacagttcttttgatgatttcatcatctcggttgagttttaaagaaatgtgttttgtgattgttctgaggaagattttctgacacttacctgcgtcattcttgttcttgtacag
- - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT