Sequence
atgc intronic sequence ATGC exonic sequenceGGAGATAAAAGTCAAGCGGAAAGAGATTGGGTTCTCTCGGAGTTTAGATCAGGCAAAAGCCCTATAATGACTGCTACAGACGTTGCAGCTCGTGGATTAGgtactaaatctttttctcatctgcgtgcaaacatcaactctcttaaccatggtgacaagctaacaacagttctttttgttttgaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G55150.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os01g10050.1 (Oryza sativa), 5'ss of exon 8
GGAGATAAAAGTCAAGCGGAAAGAGATTGGGTTCTCTCGGAGTTTAGATCAGGCAAAAGCCCTATAATGACTGCTACAGACGTTGCAGCTCGTGGATTAGgtactaaatctttttctcatctgcgtgcaaacatcaactctcttaaccatggtgacaagctaacaacagttctttttgttttgaacag
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GGTGACAAAAGCCAAGCTGAGAGGGATTGGGTTCTTTCTGAATTTAAATCAGGGAAAAGCCCTATCATGACAGCGACTGATGTGGCTGCTCGAGGCTTAGgtatacaaaaatcctcccagatcgatg--------aattatatttatttctgt---aaactaatgccacttatatctgg---aaacag
upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA07G01260.1 (Glycine max), 5'ss of exon 8
GGAGATAAAAGTCAAGCGGAAAGAGATTGGGTTCTCTCGGAGTTTAGATCAGGCAAAAGCCCTATAATGACTGCTACAGACGTTGCAGCTCGTGGATTAGgtactaaatctttttctc------atctgcgtgcaaacatcaactctcttaaccatggtgacaagctaaca-acagttctttttgttttgaacag-----
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GGAGATAAAAGTCAAGCAGAAAGAGATTGGGTGCTCTCAGAATTTAAATCAGGCAAAAGTCCTATTATGACGGCAACAGATGTTGCAGCCCGTGGTCTAGgtgcaaaaacttttgctttatttaattctttgtcatattgttattcagtggatgaaaatgatttagtgatatatagttatggaaatactcagtactttta
upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA08G20670.1 (Glycine max), 5'ss of exon 8
GGAGATAAAAGTCAAGCGGAAAGAGATTGGGTTCTCTCGGAGTTTAGATCAGGCAAAAGCCCTATAATGACTGCTACAGACGTTGCAGCTCGTGGATTAGgtactaaatc-tttttctcatctgcgtgcaaacatcaactctcttaacc--atggtgacaagctaacaacagttctttttgttttgaacag----------
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GGAGATAAAAGTCAAGCAGAAAGAGATTGGGTGCTCTCAGAATTTAAATCAGGAAAAAGTCCTATTATGACGGCAACAGATGTTGCAGCCCGTGGTTTAGgtgcaaaagcatttgctttatttaattatttgtcatattgttattcagtggatgaaaatgaattagtgata-taattatagttatggaaatactcggtact
upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA07G11880.1 (Glycine max), 5'ss of exon 9
------------------------------GGAGATAAAAGTCAAGCGGAAAGAGATTGGGTTCTCTCGGAGTTTAGATCAGGCAAAAGCCCTATAATGACTGCTACAGACGTTGCAGCTCGTGGATTAGgtactaaatctttttctcatctgcgtgcaaacatcaactctcttaaccatggtgacaagctaacaacagttctttttgttttgaacag
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ATGGATGGATGGCCTGCACTCTCAATTCATGGAGATAAAAGTCACGCAGAAAGAGATTGGGTGCTCTCAGAATTTAAATCAGGCAAAAGTCCTGGTTTAGgtgcaaaaacttttgc------tttatttaattctctgtcatattgttattcagtggatgaaaatgatttagtgatatatagttatggaaatactcc-gtactttta-----------
upper sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv09s0002g02100.t01 (Vitis vinifera), 5'ss of exon 8
GGAGATAAAAGTCAAGCGGAAAGAGATTGGGTTCTCTCGGAGTTTAGATCAGGCAAAAGCCCTATAATGACTGCTACAGACGTTGCAGCTCGTGGATTAGgtactaaatctttttctcatctgcgtgcaaacatcaactctcttaaccatggtgacaagctaacaacagttctttttgttttgaacag----------------------
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GGAGATAAGAGTCAAGCAGAAAGAGATTGGGTACTCTCAGAGTTCAAAGCTGGAAAGAGTCCGATAATGACTGCAACAGATGTTGCAGCTCGTGGTTTAGgta-------tgtatgggacatgcatgta--ccatggtaccttgaaccttcattctacgttta-agctttcctttccatctggcatgattggtcatggaatctcccttcgMapped 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|116454672|gb|EG497264.1|EG497264EST: AGGCAAAAGCCCTATAATGACTGCTACAGACGTTGCAGCTCGTGGATTAG ACGTGAAAGATGTGAAGTATGTGATAAACTATGACTTCCCTGGATCACTGG
genomic: AGGCAAAAGCCCTATAATGACTGCTACAGACGTTGCAGCTCGTGGATTAGgtactaaatc ... ttttgaacagACGTGAAAGATGTGAAGTATGTGATAAACTATGACTTCCCTGGATCACTGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAGATAAAAGTCAAGCGGAAAGAGATTGGGTTCTCTCGGAGTTTAGATCAGGCAAAAGCCCTATAATGACTGCTACAGACGTTGCAGCTCGTGGATTAGgtactaaatctttttctcatctgcgtgcaaacatcaactctcttaaccatggtgacaagctaacaacagttctttttgttttgaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC