Sequence
atgc intronic sequence ATGC exonic sequencegtataaatttgattgcattaactttcttcgctgtccctttcattattagaggtacgattgtctaaactttacacatattctcagGTCGACCGTATTCTTTACTCATCTGTCGTATACCCACACAACTATGGGTTCATTCCGCGTACCCTTTGTGAGGACAGTGACCCTATTGATGTTCTTGTCA
Basic information
| species | Arabidopsis thaliana |
| transcript | AT3G53620.1 |
| intron # | 4 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os01g74350.1 (Oryza sativa), 3'ss of exon 5
gtataaatttg-attgcattaactttcttcg----ctgtccctttcattattagaggtacgattgtctaaactttacacatattctcagGTCGACCGTATTCTTTACTCATCTGTCGTATACCCACACAACTATGGGTTCATTCCGCGTACCCTTTGTGAGGACAGTGACCCTATTGATGTTCTTGTCA
||| | || || || | | |||||| || |||| | | | || || ||| || | || | || ||||||| ||||| |||| ||||| || ||||| || || |||||||||||||||||||| || || || || || || ||||| ||| | ||||| || ||||
gtaaagatacatgtttcactcatcttcttctgcacttgcagttttcctaagcttatgtttccttttctgtaccatgca-acatgctcagGTAGACCGAGTTCTCTACTCTTCAGTCGTCTATCCTCACAACTATGGGTTCATTCCTCGCACGCTGTGCGACGATAGTGATCCTTTGGATGTGCTGGTCA
upper sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G137930_T02 (Zea mays), 3'ss of exon 5
------------------------gtataaatttgattgcattaactttcttcgctgtccctttcattattagaggtacgattgtctaaactttacacatattctcagGTCGACCGTATTCTTTACTCATCTGTCGTATACCCACACAACTATGGGTTCATTCCGCGTACCCTTTGTGAGGACAGTGACCCTATTGATGTTCTTGTCA
| || | | |||| | || | || || | || | |||| | || || | ||| | | |||| |||||| | || || ||||| || || ||||| ||||||||||| |||||||| || || |||||||| |||||||| ||| | ||||| || || |
gtaaagcaatgttgttttcctcccgctgaagtcttattgtga-agctatatttcttgccagttctaatatttactcctttccgtttcaatctgtgtgcatgtgc--agGTGGACCGTGTGCTGTATTCATCAGTTGTTTACCCTCACAACTATGGATTCATTCCTCGCACGCTTTGTGAAGACAGTGATCCTTTGGATGTACTGGTTA
upper sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA13G19500.2 (Glycine max), 3'ss of exon 4
gtataaatttgattgcattaactttcttcgctgtccctttcattattagaggtacgattgtctaaactttacacatattctcagGTCGACCGTATTCTTTACTCATCTGTCGTATACCCACACAACTATGGGTTCATTCCGCGTACCCTTTGTGAGGACAGTGACCCTATTGATGTTCTTGTCA
||| || |||| || |||| | || || | | | || | | ||| | | | || ||| ||||| || ||||| ||||||||||| || || || || |||||||||||||| ||||| ||||| ||||||||||| |||| || || ||||| | || |
--gtaatcatggttgc-ctagcttttt---cttcccttgttacacttgttgacaggatattgctgaacatgcatctatgtgcagGTTGATCGTATACTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTTATTCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTA
upper sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G33000.6 (Glycine max), 3'ss of exon 6
gtataaatttgattgcattaactttct--tcgctgtccctttcattattagaggtacgattgtctaaactttacacatattctcagGTCGACCGTATTCTTTACTCATCTGTCGTATACCCACACAACTATGGGTTCATTCCGCGTACCCTTTGTGAGGACAGTGACCCTATTGATGTTCTTGTCA
||||| | | | | | || ||| ||| | | | ||||||| || | ||| ||| |||||||| ||||||||||||| || || || || ||||| |||||||| || || ||||| |||||||||||||||| || | ||||| | | |
-----------gttgcaatcgttgcagagttattttttattatattgttactatgtcaagt-tctaaacacta-atctatgaacagATCGACCGTGTTCTTTACTCATCAGTTGTGTATCCTCACAATTATGGGTTTATCCCACGTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTA
upper sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G35710.1 (Glycine max), 3'ss of exon 6
gtataaatttgattgcattaactttct--tcgctgtccctttcattattagaggtacgattgtctaaactttacacatattctcagGTCGACCGTATTCTTTACTCATCTGTCGTATACCCACACAACTATGGGTTCATTCCGCGTACCCTTTGTGAGGACAGTGACCCTATTGATGTTCTTGTCA
||| | || | | | || || | ||| | | | |||||| || | ||| | ||| ||||||| | ||||||||||| || || || || |||||||||||||| || || ||||| |||||||||||||||| || | ||||| | | |
-----------gttgtaatagttgctgagttattttcgattctacggttactaagtcaagttgctaaacacta-atctatgcacagATCGACCGCGTGCTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTTATCCCTCGTACTATTTGTGAGGACAGTGATCCCCTGGATGTCTTGATTA
upper sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA10G05130.1 (Glycine max), 3'ss of exon 4
gtataaatttgattgcat--taactttcttcgctgtccctttcattattagaggtacgattgtctaaactttacacatattctcagGTCGACCGTATTCTTTACTCATCTGTCGTATACCCACACAACTATGGGTTCATTCCGCGTACCCTTTGTGAGGACAGTGACCCTATTGATGTTCTTGTCA
||| | ||| | | || | | |||| | | || || ||| |||| || ||| || ||| ||||| || ||||| ||||||||||| || || || || |||||||||||||| || || ||||| ||||||||||| |||| || || ||||| | || |
--gtaatcatcgctgcctagttttttcttcccttgtcgcacttgttgctacaggat--attg-ctgaacag-gcatctatgtgcagGTTGATCGTATCCTTTACTCATCGGTTGTGTATCCTCACAACTATGGGTTTATCCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTA
upper sequence: AT3G53620.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 5
----------------------gtataaatttgattgcattaactttcttcgctgtccctttcattattagaggtacgattgtctaaactttacacatattctcagGTCGACCGTATTCTTTACTCATCTGTCGTATACCCACACAACTATGGGTTCATTCCGCGTACCCTTTGTGAGGACAGTGACCCTATTGATGTTCTTGTCA
| |||| ||| || | | ||||| | | || || | || | ||| ||| || || |||||| || ||||| | |||||||| || || || |||||||| |||||||||||||| ||||| ||||||||||| || || ||||||||||| ||||
gtacgtcattgccagtgactaactctaaacgatcttgtcttca-tatcttcacgagctgttggcttggctcaaccaccgctccttaatcttaacctcatttttcagGTTGATCGTATCTTGTACTCATCAGTTGTCTATCCACACAATTATGGGTTCATTCCACGTACTCTTTGTGAGGATGAGGATCCCATTGATGTTCTCGTCAMapped 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|164122543|gb|ES019056.1|ES019056EST: AGGGAGCAAGGTGAAATAATGAACTCGACAAAACTACGGGTCTCATTAAG GTCGACCGTATTCTTTACTCATCTGTCGTTATACCCACACAACTATGGGTT
genomic: AGGGAGCAAGGTGAAAT-ATGAACTCGACAAAACTACGGGTCTCATTAAGgtataaattt ... atattctcagGTCGACCGTATTCTTTACTCATCTGTCGT-ATACCCACACAACTATGGGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctgtccctttcattattagaggtacgattgtctaaactttacacatattctcagGTCGACCGTATTCTTTACTCATCTGTCGTATACCCACACAACTATGGGTTCATTCCGCGTACCCTTTGTGAGGACAGTGACCCTATTGATGTTCTTGTCA
gtctaaa putative branch site (score: 3)
tattctc putative PPT
tttcattatta TA-rich tract
