Sequence
atgc intronic sequence ATGC exonic sequenceAAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTGACAAAGgtttgtcttttttcttacatgatttctctagtaaattttagaaccaataaatgataagtacatatttgcattctaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G19690.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G19690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os05g44360.1 (Oryza sativa), 5'ss of exon 5
AAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTGACAAAGgtttgtcttttttcttacatgatttctctagta-----aattttagaaccaataaatgataagtacatatttgcattctaacag-------
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AAATTCTCTAAACATTCCGTTGTCAGTGGAGACTGTTTGTGTGTTCACTGCTCCAATATTCTCAGCAAACGCTTCCTGGGCTACTTACCTTTTAACAAAGgtgttattttttcctctcccggaagcactagttctcacactattggtactcataca-aataattgtgcttatttcttttaaccttccatag
upper sequence: AT5G19690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA01G01270.1 (Glycine max), 5'ss of exon 5
AAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTGACAAAGgtttgtc----------ttttttcttacatgatttctctagtaaattttagaaccaataaatgataagtacatatttgcattctaacag
||||| ||||||| ||||| ||||| || ||||| ||||| || ||||||||| |||| ||||| ||||| || ||||||||||| ||| |||||||||||||| || | | || ||| || || || | ||| | | || || ||
GAATTCCCTAAACATACCTCTCTCAGTTGAAACTGTTTGTGTGTTTACTGCACCTATATTCTCAGCCTTTGCTTCATGGGCAACTTATCTTCTGACAAAGgtttgtaaatgccagaattgcagcctgtatatttttgct-gttgtttatgtgcttgctaatttgctgcagccgcttccttttgtag---
upper sequence: AT5G19690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G08410.1 (Glycine max), 5'ss of exon 5
AAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTGACAAAGgtttgtctttt------ttcttacatgatttctctagtaaattttagaaccaataaatgataagtacatatttgcattctaacag
||||| | ||||| ||||| ||||| || ||||| ||||| || ||||||||| |||| || || ||||| || ||||||||||| ||| |||||||||||||| | || | || | ||| | | || | | | || | | | ||
GAATTCCATTAACATACCTCTCTCAGTTGAAACTGTTTGTGTGTTTACTGCACCTATATTCTCTGCCTTTGCTTCATGGGCAACTTATCTTCTGACAAAGgtttgtacatgccggaattgcagcttgtatattcttgctgttgtttatgtgcttgctaatttgctgcagctgcttccttttgtag
upper sequence: AT5G19690.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv11s0016g03320.t01 (Vitis vinifera), 5'ss of exon 5
AAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTGACAAAGgtttgtctttt-------ttcttacatgatttctctagtaaattttagaaccaa--taaatgataagtacatatttgcattctaacag----------------
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GAATTCCTTGAATATTCCTCTATCTGTTGAAACTGTCTGTGTGTTTACTGCACCTATATTTTCTGCTAATGCTGCATGGGCAACTTATCTTCTGACCAAGgtttgtcttctgactagatttgtctgtggtttggattctaggttttgacctcagattttctgatga-tgtttatttccttttttttctttttaaatatttttagMapped 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|86067003|gb|DR362760.1|DR362760EST: CACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTGACAAAG GAAGTTAAGGGCTCCGGTGCAGGACTTGCAGCTGCTGCTCTTTTGGCCATG
genomic: CACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTGACAAAGgtttgtcttt ... attctaacagGAAGTTAAGGGCTCCGGTGCTGGACTTGCAGCTGCTGCTCTTTTGGCCATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAATTCATTAAACATTCCTCTGTCAGTAGAGACTGTCTGTGTCTTCACTGCACCTGTATTTTCAGCTTTTGCATCCTGGGCAACTTACCTTTTGACAAAGgtttgtcttttttcttacatgatttctctagtaaattttagaaccaataaatgataagtacatatttgcattctaacag
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