Sequence
atgc intronic sequence ATGC exonic sequencegtaactaatcgtcgatggtgtctttgatacttcttcttaaattcctctatgtttctctacttacccgaagaaacttatgtttttgtatttaatagGAACGAGATAGTTACTGGAAGATGATGCAGAAATATATAGGTTCGGATATTACGTCAATGGTGACTCTTCCTGTTGTTATATTTGAGCCTATGACTATGC
Basic information
| species | Arabidopsis thaliana |
| transcript | AT5G59420.1 |
| intron # | 2 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G59420.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G174644_T01 (Zea mays), 3'ss of exon 2
------gtaactaatcgtcgatggtgtctttgatacttcttcttaaattcctctatgtttctctact-tacccgaagaaacttatgtttttgtatttaatagGAACGAGATAGTTACTGGAAGATGATGCAGAAATATATAGGTTCGGATATTACGTCAATGGTGACTCTTCCTGTTGTTATATTTGAGCCTATGACTATGC
||| || | | | | | || || | | | ||| || ||| | | | | | |||| | || || |||| || ||||| ||||||||||||||||| ||||| ||||| || ||| |||| ||| | ||||| ||||| || | || |||||||| ||||| ||||
atcgtagtagttatgatccaac--tatttactatcctacacttggagttctgacctgattcaggatcacgatctttaacaatcatgtgtggttaatttgcagGACCGTGATAGCTACTGGAAGATGATGCACAAATACATAGGATCAGATGTTACATCACTTGTGACACTTCCAGTCATAATTTTTGAGCCAATGACAATGC
upper sequence: AT5G59420.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA12G06690.1 (Glycine max), 3'ss of exon 2
--gtaactaatcgtcgatg---gtgtctttgatacttcttcttaaattc-ctctatgtttctctacttacccgaagaaacttatgtttttgtatttaatagGAACGAGATAGTTACTGGAAGATGATGCAGAAATATATAGGTTCGGATATTACGTCAATGGTGACTCTTCCTGTTGTTATATTTGAGCCTATGACTATGC
| || || | | | || || |||| | || || | ||| | | || | ||| | | |||||| ||| ||||| ||||| |||||||||||||||||||||| ||||| || |||||| | || ||||||||||| | |||||| |||||||||| || |||||||||
ctttttctcttccttggcatatgcctcattcatacatgctcatattctgattctgaatattattatctcttttttctccctttggctcttgtatataa-agGAAAGAGATGGTTACTGGAAGATGATGCAGAAGTATATTGGCTCGGATGTAACATCAATGGTGACATTACCTGTTATTATATTTGAACCAATGACTATGA
upper sequence: AT5G59420.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G14770.1 (Glycine max), 3'ss of exon 2
--------gtaactaatcgtcgatg---gtgtctttgatacttcttcttaaattcctctatgtt-tctctacttacccgaagaaacttatgtttttgtatttaatagGAACGAGATAGTTACTGGAAGATGATGCAGAAATATATAGGTTCGGATATTACGTCAATGGTGACTCTTCCTGTTGTTATATTTGAGCCTATGACTATGC
| || || | | | || || |||| | || || | | | || ||||| || | | ||| | | |||||| ||| ||||| ||||| |||||||||||||||||||||| ||||| || |||||| | || ||||||||||| || || ||| |||||||||| || |||||||||
gatttcccttttctcttccttggcatatgcctcattcatacgtgctcatattctgaacattattatctcttttttctcc------ctttggctcttgtatataa-agGAAAGAGATGGTTACTGGAAGATGATGCAGAAGTATATTGGCTCGGATGTAACATCAATGGTGACACTACCAGTTATTATATTTGAACCAATGACTATGA
upper sequence: AT5G59420.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA15G04210.1 (Glycine max), 3'ss of exon 2
--------gtaactaatcgtcgatggtgtctttgatacttcttcttaaattcctctatgtttctctacttacccgaagaaacttatgtttttgtatttaatagGAACGAGATAGTTACTGGAAGATGATGCAGAAATATATAGGTTCGGATATTACGTCAATGGTGACTCTTCCTGTTGTTATATTTGAGCCTATGACTATGC
|| | || || || | | | | | | | | || | || || | | ||| |||||||| | ||||| ||||| ||||||||||||||||||| |||||||| || || ||| | || |||||||| || || || ||| |||| ||||| || ||||||||||
ttttggttttactttattttctatttttcttcttcagcacatacctgatgcatactttattgtgatattattttttcctatctttgacttttgtat---acagGAAAGAGATGGTTACTGGAAGATGATGCACAAATATATTGGCTCAGATGTAACATCAATGGTAACACTACCAGTTATTATTTTTGAACCAATGACTATGC
upper sequence: AT5G59420.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv06s0004g04930.t01 (Vitis vinifera), 3'ss of exon 2
gtaactaatcgtcgatggtgtctt-tgatacttcttctta--aattcctctatgtttctctacttacccgaagaaactta---tgtttttgtatttaatagGAACGAGATAGTTACTGGAAGATGATGCAGAAATATATAGGTTCGGATATTACGTCAATGGTGACTCTTCCTGTTGTTATATTTGAGCCTATGACTATGC
| || || | || | ||| | | ||| |||| || || | || || | | | | | |||| | | | | |||||| | || |||||||||||||||||||| || ||||||||||| ||| | || ||||||||||| ||||| ||| | || |||||||| ||||| ||||
-aatcttgtcttgaattacccgatatgaaatcatattttagcaatttatcctgtattttttatttgtgctgatattttgagcttgttctgttttcttgtagGAAAGGGACAGTTACTGGAAGATGATGCAAAAGTATATAGGTTCAGATGTCACCTCAATGGTGACACTTCCAGTTCTGATTTTTGAGCCAATGACAATGC
upper sequence: AT5G59420.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S148_87V6.1 (Physcomitrella patens), 3'ss of exon 2
---------------------------------------------------------------------------------------------gtaactaatcgtcgatggtgtctttgatacttcttcttaaattcctctatgtttctctacttacccgaagaaacttatgtttttgtatttaatagGAACGAGATAGTTACTGGAAGATGATGCAGAAATATATAGGTTCGGATATTACGTCAATGGTGACTCTTCCTGTTGTTATATTTGAGCCTATGACTATGC
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gtgaccttcatcttcatgccttaagcatcgagatcagtaatcatttttaatgtatgttgtggtgtggcattagtgccaatttcggcgaactggattggaattaatttaactcctcttgaattttaatgtgaaagaatcagtacatcggctgccttaccgttgggtttttgttatgtggcaagtg-cagGATAGAGAAAGTTATTGGAAAATGATGCACAAGTACATAGGTTCTGACATTACTTCAATGGTGACACTTCCAGTCATCATATTTGAGCCCATGACTACGCMapped 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|125256864|gb|EL270949.1|EL270949EST: GATGCTGAAGAGGAAGCTCAGAAAGGAAGGTGGAAGGACGAG GAACGAGATAGTTACTGGAAGATGATGCAGAAATATATAGGTTCG
genomic: GATGCTGAAGAGGAAGCTCAGAAAGGAAGGTGGAAGGACGAGgtaactaatc ... tatttaatagGAACGAGATAGTTACTGGAAGATGATGCAGAAATATATAGGTTCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcctctatgtttctctacttacccgaagaaacttatgtttttgtatttaatagGAACGAGATAGTTACTGGAAGATGATGCAGAAATATATAGGTTCGGATATTACGTCAATGGTGACTCTTCCTGTTGTTATATTTGAGCCTATGACTATGC
tacttac putative branch site (score: 1)
tttttgt putative PPT
aagaaacttatgtttt TA-rich tract
