Sequence
atgc intronic sequence ATGC exonic sequenceAAGGAATGTCGGTGTTGTGTTCAATAATATCTATGAGCTAAGCGGCCTTATTTCTGGAGATCAATACTTCTCTGCTGATTCACTTACTGATAGCCAAAAGgtttgctccatgttgcttaacttataacaacattctttgctttgctgcaagttatagtttagtttaagttaagattcactatcttctattaaaagtttattagctatgattcaccatcttcttttgaatccacttaaagaagagagttatcaaatttgattctttctttcacttctgtgttctaaag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G57580.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G57580.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA13G01160.1 (Glycine max), 5'ss of exon 7
AAGGAATGTCGGTGTTGTGTTCAATAATATCTATGAGCTAAGCGGCCTTATTTCTGGAGATCAATACTTCTCTGCTGATTCACTTACTGATAGCCAAAAGgtttgctccatgttgcttaacttataacaacattctttgctttgctgcaagttatagtttagtttaagttaagattcacta-tcttctattaaaagtttattagctatgattcaccatcttcttttgaatccacttaaagaagagagttatcaaatttgattctttctttcacttctgtgttctaaag
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AAGAAATGTTGGCATTATTTTTAACAACATCTATGAGCTGCGTGGCCTTATATCAGGAGACCAATTCTATTCTGCTGATTCTCTCACTGATAGCCAGAAGgttag-tccgtgtcatgtgtttcatctgctggtattaatagataatgcgactttaagt---gtttga--tgagcttctgtagttctctatgatagttttttcttct----------------------------------------------------------------------------------
upper sequence: AT5G57580.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA17G07290.1 (Glycine max), 5'ss of exon 8
AAGGAATGTCGGTGTTGTGTTCAATAATATCTATGAGCTAAGCGGCCTTATTTCTGGAGATCAATACTTCTCTGCTGATTCACTTACTGATAGCCAAAAGgtttgctccatgt--tgcttaacttataacaacattctttgctt-tgctgcaagttatagtttagtttaagttaagattcactatcttctattaaaagtttattagctatgattcaccatcttcttttgaatccacttaaagaagagagttatcaaatttgattctttctttcacttctgtgttctaaag
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AAGAAATGTTGGCGTTATTTTTAACAACATCTATGAGCTGCGTGGCCTTATATCAGGAGACCAATTCTATTCTGCTGATTCTCTCACTGATAGCCAGAAGgttag-tccatgtcatgtgtttcttctgctgatatcaatagataatgctatgactttaagt---gtttga--tgagcttctgtagttctgtataatagtttgtcct------------------------------------------------------------------------------------
upper sequence: AT5G57580.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv11s0052g01380.t01 (Vitis vinifera), 5'ss of exon 6
AAGGAATGTCGGTGTTGTGTTCAATAATATCTATGAGCTAAGCGGCCTTATTTCTGGAGATCAATACTTCTCTGCTGATTCACTTACTGATAGCCAAAAGgtttgctccatgt-tgcttaacttataacaacattctttgctttgctgcaagttatagtttagt-ttaagttaagattcactatcttctattaaaagtttattagctatgattcaccatcttcttttgaatccacttaaagaagagagttatcaaatttgattctttctttcacttctgtgttctaaag
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AAGAAATGTTGGTGTTATTTTTAACAACATCTATGAGCTGAGTGGTCTTATTGCTGGGGAGCAGTATTTCTCTGCTGATTCTCTTTCTGAGAGCCAAAAGgttggtatcgtatatgctt---ttat----------tttgttttt---taaatgatattctgctgttatattgtgtttaagtggttccctttaagatctagtctgc-atgat--gacgt----------------------------------------------------------------------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|164113082|gb|ES007642.1|ES007642EST: CACTTACTGATAGCCAAAAG GTATATGTTGAGGGGCTGGTGAAGAAAGCATATGAAAACTGGAACCTAGTC
genomic: CACTTACTGATAGCCAAAAGgtttgctcca ... tgttctaaagGTATATGTTGAGGGGCTGGTGAAGAAAGCATATGAAAACTGGAACCTAGTC
EST:
gi|124850518|gb|EH934955.1|EH934955EST: TTTCTGGAGATCAATACTTCTCTGCTGATTCACTTACTGATAGCCAAAAG GTATATGTTGAGGGGCTGGT
genomic: TTTCTGGAGATCAATACTTCTCTGCTGATTCACTTACTGATAGCCAAAAGgtttgctcca ... tgttctaaagGTATATGTTGAGGGGCTGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGGAATGTCGGTGTTGTGTTCAATAATATCTATGAGCTAAGCGGCCTTATTTCTGGAGATCAATACTTCTCTGCTGATTCACTTACTGATAGCCAAAAGgtttgctccatgttgcttaacttataacaacattctttgctttgctgcaagttatagtttagtttaagttaagattcactatcttctattaaaagtttattagctatgattcaccatcttcttttgaatccacttaaagaagagagttatcaaatttgattctttctttcacttctgtgttctaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT