Sequence
atgc intronic sequence ATGC exonic sequencegtgagtctgacttgtctcttatcagtctgaatgtactactaatttagtctcatgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaatgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G59110.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os01g47470.1 (Oryza sativa), 3'ss of exon 3
gtgagtctgacttgtctcttatcagtctgaatgtactactaatttagtctcatgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaatgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA---
| | || | | || | || | | ||| | || | | | || | | || | || | | | || | | | ||| | | ||||||||||||| ||||| ||||| || | ||| ||| ||||||||||||| ||||| |||||| | ||| || |||||||| || |||||
----atggaaattctgttccttccctt---gtgcataatcaatat-gtgttttccttgttcccttgtt-tctcactgtacattgaccttttctgaatattcacct---------------gcagGATGCTTGTCTATGAATATGTCAACAATGGAAACCTAGAACAATGGCTTCATGGGGCCATGAGTGGG---GGCATCCTTACTTGGGAAAACCGTATGAAGATT
upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os10g35450.1 (Oryza sativa), 3'ss of exon 3
gtgagtctgacttgtctcttatcagtctgaatgtactactaatttagtctcatgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaatgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA
||| || | || | | ||| | | || | | |||| | | | || || | ||| ||||| |||| ||| | || | |||||||||||| || || |||||||||| || ||||||||||| ||||| ||||| |||||| | |||| | ||| || ||||| || || ||||||
------------------ttagtggtt--agtggtgtccaaatctttctttgtgtacatcatactatgtttttgtagtctattaaact-tccatcctatca---tctgacttgttatattccagGATGCTTGTATACGAATATGTGAATAACGGGAACTTAGAACAGTGGCTTCATGGTGCCATGCGCCAACATGGTGTTCTTACCTGGGAAGCCCGAATGAAA
upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G010953_T01 (Zea mays), 3'ss of exon 1
gtgagtctgacttgtctcttatcagtctgaatgtactactaatttagtct-catgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaatgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA
|| || ||| || || | | | | | ||| | || | | || | || ||| | || | | | | | | | | || | | | |||||||||||| || ||||||||||||| ||| ||||||||||| ||||| ||||| || ||| | | || | ||| ||||||||||| || ||||||
-------------------taaagtggtgtatggac-accattcaaatatatatgcttcatatgccatattgttatttaatcta---ttttagcgttctcctaatcatatcatgttat--tccagGATGCTTGTGTACGAGTATGTGAATAATGGGAACTTAGAACAGTGGCTTCATGGTGCAATGCGTCAGCACGGTGTTCTTACTTGGGAGGCCCGGATGAAA
upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G026301_T01 (Zea mays), 3'ss of exon 3
gtgagtctgacttgtctcttatcagtctgaatgtactactaatttagtctcatgagtaatctcctattgtactaccgaatagaaacttgtccca-tgtatcaatttctgttttgatgtaatgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA
| || ||| || ||| | | ||| || || || || || || | | || | | | ||| ||| | | || | |||||||||||| |||||||| ||||| | ||| || |||||||| ||||| ||||| |||||| | | || | ||| |||||||| || || ||||||
--------------------agtggtt--aatatattaccatggaaatct-atatgtt-tcatacatcata-tattgttttttaatctatttgagtgttctcattatcatatcctcttactccagGATGCTTGTGTATGAGTACGTGAACAATGGAAATTTAGAACAGTGGCTTCATGGTGCCATGCGTCAGCATGGTGTTCTTACTTGGGAAGCCCGGATGAAA
upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G031400_T01 (Zea mays), 3'ss of exon 3
gtgagtctgacttgt-ctcttatcagtctgaatgtactactaa--tttagtctcatgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaatgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA---
| || | | || || | | | || || | || || | | | | | |||| | | ||| |||||| | ||| | || || ||||||||||||| || |||||||| |||| ||| ||| | ||||||||||| ||||| | || |||| | || | |||||| || ||||||
-----------tagtatttctggcaacaaaaaggcaatttcaaggttcaaactattgtg-attatatttttgttttgttgcatatggacttgttctg------aatatttgctt---------gcagGATGCTTGTCTACGAGTATGTTAATAATGGCAACCTGGAACAATGGCTTCATGG---CGTGAATCAACACGGTGTCCTTAGTTGGGAAAACCGTATGAAAATT
upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA14G03290.1 (Glycine max), 3'ss of exon 2
---------------------------------------gtgagtctgacttgtctctta---tcagtctgaatg-tactactaa-tttagtctcatg--agtaatctcctattgtact----accgaatagaaacttgtccc------atgtatcaatttctgttttgatgta-----------------atgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA
| | || || | | | ||| ||| ||| || | | | ||| | | ||| ||| || | ||| | | | | | || ||| || | |||| || | ||||| | ||| | || |||| ||||||| ||||| |||||||| | ||||||||||||||||||| ||||||||| |||| || | | || || || |||||||| |||||||||
gtaaaaaatattctttgttttcctacattagtatccactaacactttgtattatattgcacattcattctcaataatagtgccagctttgggtttatgatagtcatattctacttagtccgaaattggacataagcttttctctgtgttatgtctctttatctgtcataatgaatgtgcttcctgattgatattcagGCTGCTTGTGTATGAATATGTGAACAATGGTAACTTAGAACAATGGTTACATGGAGACATGCATCAATATGGAACACTTACCTGGGAGGCCCGCATGAAA
upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 2
---------------------------------------------------------gtgagtc---tgacttgtctcttatcagtctgaatgtactactaattt---agtctcatgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaa--tgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA
| | || | | | | | | |||| |||| | | | ||| | || | |||| || ||| | | | || ||| | | | |||||| |||| || ||||| |||||||| | ||||||||||||||||||||||||||| || ||| | ||||| | || || || ||||| || || ||||||
gtaaacttggtgttcttaatgcatcaaaatatcaccaatgcatatttcccttctatactcaatcacattgcaaactttattttgtgatagatgtgttacttttctgtcaaaaatttgaacagaacatcttttccttgttatatagttctttttcctttattatagatttggttgccgtctgatttgcagGTTGCTGGTATATGAATATGTGAACAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCCCGGATGAAA
upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G45540.1 (Glycine max), 3'ss of exon 4
gtgagtctgacttgtctcttatcagtctgaatgtactactaatttagtctcatgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgta-atgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA
| | | | | | || || | | | | | || | | ||| | | | ||| || ||| | | ||| | || |||| ||||||| ||||| |||||||| | ||||||||||||||||||| |||||||| |||| || | | || || || |||||||| |||||||||
-----------------------atattctactttgtccaaaattgaacataagcttttctctatgttatgtctctatatatgtattc-tgtcata-atgaatgtgcttcccgattgatattcagGCTGCTTGTGTATGAATATGTGAACAATGGTAACTTAGAACAATGGTTACATGGAAACATGCACCAATATGGGACGCTTACCTGGGAGGCCCGCATGAAA
upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 2
---------------------------------------------------gtgagtctgactt-gtctcttatcagtctgaatgtactactaatttagtctca----tgagtaatctcctattgtactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaa--tgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA-
| |||| | | | |||| | | | |||| ||| ||| | ||| | || | |||| || || || || | | ||| | | | |||||| |||| || ||||| ||||| || | ||||||||||||||||||||||||||| || ||| | ||||| | || || || ||||| ||||| ||||||
taagctttgtaaaaatatcacaaatgcatattttcccttctatattcgatcacattacaaactttattttgtggtggtcttagtct--tactttttttgtcaaaaatttgaacagaacatcttttccttgttatatagttctttttctttcataataaatgcggttgccgtctgatttgcaggTTGCTGGTGTATGAATATGTAAACAATGGTAACTTAGAACAATGGCTACATGGGGCTATGAGCCAACAAGGGACACTTACCTGGGAAGCTCGAATGAAAG
upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 4
-------------------------------------------------------------gtgagtctgact--tgtctcttatcagtctgaatgtactactaatttagtctcatgagtaatctccta----ttgtactaccgaataga---aacttgtccc--atgtatcaattt--ctgttttgatgtaatgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA
|| | | | | | | | || ||| |||| ||||| | || |||| | | | | || | | | | | || | ||| | |||| || | | || | | |||| |||||||| || ||||| |||||||| | ||| ||||||||||| ||||| |||||||| ||| | || | ||| || ||||||||||| ||||||||
gtaagatttgttcactttttattgatgtggtaatttatttcattcctattcatttggcatgttggatgttattattatttattgtcatgatgaa-gtactttttcgttgaaaaacaaagtacttttccaattcttttgcaatcttgtcgatctgatttgcctgggatgtggttatgtacttattattctttaatatagGATGCTGGTGTATGAATATGTGAACAATGGCAACTTAGAACAGTGGCTTCATGGAGCTATGCGCCAATATGGCAACCTTACTTGGGAGGCCCGCATGAAGMapped 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|164164156|gb|ES025977.1|ES025977EST: CACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTTAATAG GATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAAC
genomic: CACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTTAATAGgtgagtctga ... tgtaatgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tactaccgaatagaaacttgtcccatgtatcaatttctgttttgatgtaatgcagGATGCTTGTTTATGAGTATGTGAATAGTGGTAACTTAGAACAATGGCTACATGGAGCCATGGGAAAACAAAGCACTCTCACTTGGGAGGCTCGCATGAAA
ttttgat putative branch site (score: 4)
tatcaattt TA-rich tract