Sequence
atgc intronic sequence ATGC exonic sequenceATCATCCAACGCCTACAAGAGCTGAAGTCTCTGACATTGCAATTGCAGTACGTGAAGGCGCAGATGCTATCATGCTTTCTGGTGAAACCGCACATGGAAAgttcgtatttctaattaaagccttaccttttgacgtcaatataacttaccatgtcatgtgatcttgaatgttctttggttttaattctcggatgtcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G32440.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G32440.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os10g42100.1 (Oryza sativa), 5'ss of exon 8
ATCATCCAACGCCTACAAGAGCTGAAGTCTCTGACATTGCAATTGCAGTACGTGAAGGCGCAGATGCTATCATGCTTTCTGGTGAAACCGCACATGGAAAgttcgtatttctaattaaagc--cttaccttttg---acgt--caatataacttaccatgtcatgtgatcttgaatgttctttggttttaattctcggatgtcag---------------------------------------------
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ACCATCCCACTCCAACAAGAGCAGAAGTTTCTGATATAGCAATTGCAGTTCGTGAAGGTTCTGATGCCATCATGCTGTCTGGTGAAACTGCCCATGGAAAgtaag-atttcaacctgacacaggttactttttgtttatgttcctccatgtgcatccaagaaatttatttctttaagctctt-gctgtgggtgcatagaattctgctttccaattagacttaccttgattgtgcatcttactgtgtttag
upper sequence: AT1G32440.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G144730_T01 (Zea mays), 5'ss of exon 8
ATCATCCAACGCCTACAAGAGCTGAAGTCTCTGACATTGCAATTGCAGTACGTGAAGGCGCAGATGCTATCATGCTTTCTGGTGAAACCGCACATGGAAAgttcgtatttctaattaaagcct---taccttttgacgtcaatataacttaccatgtcatgtgatcttgaatgttctt-tggttttaattctcggatgtcag--
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ACCATCCTACTCCAACTAGGGCAGAAGTTTCTGACATAGCTATTGCAGTCAGGGAAGGTGCTGATGCCATCATGTTATCTGGTGAAACTGCTCATGGAAAgtaaggttcaacatttgttgtttatgtaagattaggcacaagaatagttgattg-attataggag---aaatggtgttacaaatataggcaatgatggcccaat
upper sequence: AT1G32440.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA11G04490.1 (Glycine max), 5'ss of exon 4
ATCATCCAACGCCTACAAGAGCTGAAGTCTCTGACATTGCAATTGCAGTACGTGAAGGCGCAGATGCTATCATGCTTTCTGGTGAAACCGCACATGGAAAgt--tcgtatttctaattaa--agccttaccttttgacgtcaatataactt--accatgtcatgtgatcttgaatgttc-tttggttttaattctcggatgtcag
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ATCATCCCACACCGAGGAGGGCAGAAGTCTCAGACATTGCAATTGCAGTAAGACAAGGTGCTGATGCTATCATGCTTTCAGGAGAAACTGCACATGGAAAgtgattttgctgttccttggtgacctttgttcttatattttatttttgttttagctgttcaaactttttttcaatattcattttttactatttgtaatgcataag
upper sequence: AT1G32440.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA01G40860.1 (Glycine max), 5'ss of exon 7
ATCATCCAACGCCTACAAGAGCTGAAGTCTCTGACATTGCAATTGCAGTACGTGAAGGCGCAGATGCTATCATGCTTTCTGGTGAAACCGCACATGGAAAgttcgt--atttctaattaa-agccttaccttttg-acgtcaatataacttaccatgtcatg-tgatcttgaatgttctttggttttaattctcggatgtcag
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ATCATCCCACACCAACAAGGGCAGAAGTTTCAGACATCGCAATTGCAGTAAGACAAGGTGCTGATGCTATCATGCTTTCAGGAGAAACTGCACATGGAAAgtgagtttgctgttccttggtgaccatggttcctatattttatttttatttagctgttcaaactttttttcaatattcaat--ttttactatttgaaatgca-
upper sequence: AT1G32440.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv02s0012g01170.t01 (Vitis vinifera), 5'ss of exon 8
ATCATCCAACGCCTACAAGAGCTGAAGTCTCTGACATTGCAATTGCAGTACGTGAAGGCGCAGATGCTATCATGCTTTCTGGTGAAACCGCACATGGAAAgttcgtatttctaattaaagccttacctt-ttgacgtcaa-tataacttaccatgtcatgtgatcttgaatgttctttggttttaattctcggatgtcag--
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ATCATCCTACACCAACAAGGGCCGAAGTTTCTGATATTGCAATTGCTGTAAGAGAAGGTGCTGATGCAGTTATGCTTTCTGGAGAAACTGCCCATGGAAAgtaagtcgccctggctagcatttagtcgcatcaataccaaatttgaatttgtttatgctagcagtactaacttttttc--tttagtttcttagttaaaacagMapped 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|164065675|gb|ES003345.1|ES003345EST: GATGCTATCATGCTTTCTGGTGAAACCGCACATGGAAA GTTTCCGCTGAAAGCTGTTAACGTAATGCATACTGTGGCGTTGAGAACCGA
genomic: GATGCTATCATGCTTTCTGGTGAAACCGCACATGGAAAgttcgtattt ... cggatgtcagGTTTCCGCTGAAAGCTGTTAACGTAATGCATACTGTGGCGTTGAGAACCGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCATCCAACGCCTACAAGAGCTGAAGTCTCTGACATTGCAATTGCAGTACGTGAAGGCGCAGATGCTATCATGCTTTCTGGTGAAACCGCACATGGAAAgttcgtatttctaattaaagccttaccttttgacgtcaatataacttaccatgtcatgtgatcttgaatgttctttggttttaattctcggatgtcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA