Sequence
atgc intronic sequence ATGC exonic sequenceAACAGGATTAGCCGAAGTGCGAAGATCTAGGAGACTAACTGTCTCTTTTCTATGTACTGTTGCCAACTACGAGTATGGGTTTTACTGGCACTTCTACCAGgttagtggaatacgtgattcttcatttcttgagtaaagcagatattagtcatatttgcatctaatttctatagggaagacaaatgatgtgtctccgcatg...
Basic information
species | Arabidopsis thaliana |
transcript | AT2G42490.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G42490.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G147884_T01 (Zea mays), 5'ss of exon 7
AACAGGATTAGCCGAAGTGCGAAGATCTAGGAGACTAACTGTCTCTTTTCTATGTACTGTTGCCAACTACGAGTATGGGTTTTACTGGCACTTCTACCAGgttagtggaatacgtgatt-cttcatttcttga-gtaaagcagatattagtcatatttg-catctaatttctatagggaagacaaatgatgtgtctccgcatg----
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AACTGGTTTAGCAGAAGTAAGGCGGTCAAGGAGGCTCACTGTTTCATTTATCTGTACAGTTGCAAACTATGAGTATGGTTTTTACTGGCACTTCTATCAGgt------aatatttcatttcctcttataatgttacaaagtaagtaccatttacctacaatacccaatatatatattatctatacaagttg-attaccgctcactga
upper sequence: AT2G42490.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S178_54V6.1 (Physcomitrella patens), 5'ss of exon 8
AACAGGATTAGCCGAAGTGCGAAGATCTAGGAGACTAACTGTCTCTTTTCTATGTACTGTTGCCAACTACGAGTATGGGTTTTACTGGCACTTCTACCAGgttagtggaatacgtgattcttcatttcttgagtaaagcagatattagtcatatttgcatctaatttctatagggaagacaaatgatgtgtctccgcatg---
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AACTGGTTCTACAGAAAGACGTCGGTCACGGCGATTAACAGTTTCTTTCTTCTGTACTGTCGCCAACTACGAGTACGGGTTTTACTGGCATTTCTATCAGgtt--tactgctctaactgcttacctacttgcatgttggacccataaatgacttgt-taaaggatttcggtgttttttgcacatgtaacttttcatcaagatg
upper sequence: AT2G42490.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S363_39V6.1 (Physcomitrella patens), 5'ss of exon 6
AACAGGATTAGCCGAAGTGCGAAGATCTAGGAGACTAACTGTCTCTTTTCTATGTACTGTTGCCAACTACGAGTATGGGTTTTACTGGCACTTCTACCAGgttag----tggaatacgtgattc--ttcatttcttgagtaaagcagat--attagtc-atatttgcatctaatttctatagggaagacaaatgatgtgtctccgcatg
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AACTGGTTCTACAGAAAGACGTCGGTCGAGGCGTTTAACTGTTTCTTTCTTTTGCACTGTTGCCAACTACGAGTACGGGTTTTACTGGCATTTCTATCAGgtttggtgctgaaactgcttacttgatgcatatcctgtctacaaagaactgactagaagatcttggtgttctgtctccacatgcaacacacaacagtagt---------
upper sequence: AT2G42490.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S9_129V6.1 (Physcomitrella patens), 5'ss of exon 8
AACAGGATTAGCCGAAGTGCGAAGATCTAGGAGACTAACTGTCTCTTTTCTATGTACTGTTGCCAACTACGAGTATGGGTTTTACTGGCACTTCTACCAGgttagtggaatacgtgattcttcatttcttgagtaaagcagatattagtcatatttgcatcta-atttctatagggaagacaaatgatgtgtctccgcatg
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AACTGGTTCTGCAGAAAGCCGTCGGTCTCGGCGATTGTCCGTTTCGTTTTTCTGCACTGTTGCCAACTATGAGTATGGTTTCTACTGGCATTTCTATCAGgttt------tattttcttttgccctcct----------gtatacttgttctgcttacaaaaggatgtttacag---------------------------
upper sequence: AT2G42490.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: EFJ14061 (Selaginella moellendorffii), 5'ss of exon 6
AACAGGATTAGCCGAAGTGCGAAGATCTAGGAGACTAACTGTCTCTTTTCTATGTACTGTTGCCAACTACGAGTATGGGTTTTACTGGCACTTCTACCAGgttagtggaatacgtgattcttcatttcttgagtaaagcagatattagtcatatttgcatctaatttctatagggaagacaaatgatgtgtctccgcatg
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GACAGGTCTTTCTGAAGTCCGAAGATCTAGACGGCTCACCGTTTCTTTCATATGCACTGTCGCAAACTACGACTATGGCTTCTACTGGCACTTCTACCAGgtagatc-aacaagc-atcctaacaatccagactatcactaaagct--ccctacttag------------------------------------------
upper sequence: AT2G42490.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: EFJ19345 (Selaginella moellendorffii), 5'ss of exon 5
AACAGGATTAGCCGAAGTGCGAAGATCTAGGAGACTAACTGTCTCTTTTCTATGTACTGTTGCCAACTACGAGTATGGGTTTTACTGGCACTTCTACCAGgttagtgg--aatacgtgattcttcatttcttgagtaaagcagatattagtcatatttgcatctaatttctatagggaagacaaatgatgtgtctccgcatg
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CTCGGGACTCTCTGAAGTTCGACGATCGAGAAGGCTAACTGTGTCCTTCCTTTGCACAGTTGCAAACTACGAATATGGCTTCTACTGGCATTTCTACCAGgtaagaacttgttaatggagtgacggcttgttactccgtgctagtacag-----------------------------------------------------
upper sequence: AT2G42490.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: EFJ21207 (Selaginella moellendorffii), 5'ss of exon 7
AACAGGATTAGCCGAAGTGCGAAGATCTAGGAGACTAACTGTCTCTTTTCTATGTACTGTTGCCAACTACGAGTATGGGTTTTACTGGCACTTCTACCAGgttagtgg--aatacgtgattcttcatttcttgagtaaagcagatattagtcatatttgcatctaatttctatagggaagacaaatgatgtgtctccgcatg
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CTCGGGACTCTCTGAAGTTCGACGATCGAGAAGGCTAACTGTGTCTTTCCTTTGCACAGTTGCAAACTACGAATATGGCTTCTACTGGCATTTCTACCAGgtaagaacttgttaatggagtgacggcttgttactccgtgctagtacag-----------------------------------------------------Mapped 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|116380602|gb|EG423194.1|EG423194EST: TATGTACTGTTGCCAACTACGAGTATGGGTTTTACTGGCACTTCTACCAG GATGGGAAAATCGAAGCTGAGGTAAAACTTACTGGTATCCTCAGTTTAGGA
genomic: TATGTACTGTTGCCAACTACGAGTATGGGTTTTACTGGCACTTCTACCAGgttagtggaa ... cttactgtagGATGGGAAAATCGAAGCTGAAGTAAAACTTACTGGTATCCTCAGTTTAGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AACAGGATTAGCCGAAGTGCGAAGATCTAGGAGACTAACTGTCTCTTTTCTATGTACTGTTGCCAACTACGAGTATGGGTTTTACTGGCACTTCTACCAGgttagtggaatacgtgattcttcatttcttgagtaaagcagatattagtcatatttgcatctaatttctatagggaagacaaatgatgtgtctccgcatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaagcaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagaca