Sequence
atgc intronic sequence ATGC exonic sequence...ttgatgcccacagctgcctgtgctcatacctgaaccaccttatcctagcttatcaaataaatgtttggaatgtattgtaaacttcttttacaatttacagATGTGGAGTCAAACGAGTGCTTAGATAACAATGGTGGTTGTTGGCAAGATAAATCAGCCAACATAACTGCTTGCAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G14740.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G14740.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA11G00370.1 (Glycine max), 3'ss of exon 5
ttgatgcccacagctgcctgtgctcatacctgaaccaccttatcctagcttatcaaataaatgtttggaatgtattgtaaacttcttttacaatttacagATGTGGAGTCAAACGAGTGCTTAGATAACAATGGTGGTTGTTGGCAAGATAAATCAGCCAACATAACTGCTTGCAAG
| | | | || | | || || | | || || | | | | | ||| | | | | |||| | ||||||||||| |||| |||||||| |||||||||||||| ||||| |||||| |||| ||||| ||||||||||||
------gcaagtgtttactttttttttattcatacaaggaaaatatactttgtgacctgattctttctgac---tggcatactttatggg------gcagATGTGGAGACAAATGAGTGCTTGACAAACAATGGTGGTTGCTGGCAGGATAAAGCAGCTAACATCACTGCTTGCAAG
upper sequence: AT2G14740.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G45380.1 (Glycine max), 3'ss of exon 5
-ttgatgcccacagctgcctg-tgctcatacctgaa----ccaccttat---cctagcttatcaaataaatgtttggaatgtattgtaaacttcttttacaatttacagATGTGGAGTCAAACGAGTGCTTAGATAACAATGGTGGTTGTTGGCAAGATAAATCAGCCAACATAACTGCTTGCAAG
| ||| || || | | | ||| | | || || | | | || | | || | || | | | | ||||||||||| |||| ||||| || |||||||||||||||||||| |||||| |||| ||||| ||||| ||||||
gtacatgtttacttcttttttcttttggtacaaggaaaatatactttgtggacttgaattgttggttgtggacctgattctttctgactgggcatgctttattgggcagATGTGGAGACAAATGAGTGTTTGACAAACAATGGTGGTTGTTGGCAGGATAAAGCAGCTAACATCACTGCATGCAAG
upper sequence: AT2G14740.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G40340.1 (Glycine max), 3'ss of exon 5
-ttgatgcccacagctgcctgtgctcatacctgaaccaccttatcctagcttatcaaataaatgtttggaatgtattgtaaacttc--ttttacaatttacagATGTGGAGTCAAACGAGTGCTTAGATAACAATGGTGGTTGTTGGCAAGATAAATCAGCCAACATAACTGCTTGCAAG
| |||| || | | | || | | | | | || | | ||| | | | || | ||| || | | | | | | | ||||||||||| |||| ||||| || || || ||||||||||||||||| |||||| ||| ||||| || || ||||||
gtaaatgctgac--tttcttttggttgtggggggatctatttttgtttacttgttagttttgaacctgaattgttttttgggttgcaaatcttctctcggcagATGTGGAGACAAATGAGTGTTTGGAGAATAATGGTGGTTGTTGGCAGGATAAAGTAGCTAACATCACCGCATGCAAG
upper sequence: AT2G14740.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G27000.1 (Glycine max), 3'ss of exon 5
-ttgatgcccacagctgcctgtgctcatacctgaaccaccttatcctagcttatcaaataaatgtttggaatgtattgtaaacttc--ttttacaatttacagATGTGGAGTCAAACGAGTGCTTAGATAACAATGGTGGTTGTTGGCAAGATAAATCAGCCAACATAACTGCTTGCAAG
| |||| || | | | || | | | | | || | | ||| | | | || | ||| || | | | | | | || ||||||||||| |||| ||||| || || || ||||||||||||||||| |||||| ||| ||||| || || ||||||
gtaaatgctgac--tttcttttggttgtggggggatctatttttgtttacttgttagttttgaacctgaattgttttttgggttgcaaatcttctcttggcagATGTGGAGACAAATGAGTGTTTGGAGAATAATGGTGGTTGTTGGCAGGATAAAGTAGCTAACATCACCGCATGCAAG
upper sequence: AT2G14740.2 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv03s0091g00740.t01 (Vitis vinifera), 3'ss of exon 5
-------------------ttgatgcccacagctgcctgtgctcatacctgaaccaccttatcctagcttatcaaataaatgtttggaatgtattgtaaacttcttttacaatttacagATGTGGAGTCAAACGAGTGCTTAGATAACAATGGTGGTTGTTGGCAAGATAAATCAGCCAACATAACTGCTTGCAAG
| ||| | | | | | | | || || | || || ||| |||| | | | | | || | || || | | ||||||||||| |||| || ||| | ||||| ||||||||||| |||||||||||| |||||||||| ||||| ||||||
gtaagcttttaccataagttagatactaagttcggtatatccaaatctcttgattgactcg--cttgctcatcagttttccttctaatctatttttttaatggattcttttcctggcagATGTGGAGACAAATGAATGCCTGGATAATAATGGTGGTTGCTGGCAAGATAAAACAGCCAACATCACTGCATGCAAGMapped 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|124811682|gb|EH896548.1|EH896548EST: ATGCTCTGGTTTTGAGGAGACCACTGAACCAGCGATATGCCTCAGCACAG ATGTGGAGTCAAACGAGTG
genomic: ATGCTCTGGTTTTGAGGAGACCACTGAACCAGCGATATGCCTCAGCACAGgtatatattg ... caatttacagATGTGGAGTCAAACGAGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagcttatcaaataaatgtttggaatgtattgtaaacttcttttacaatttacagATGTGGAGTCAAACGAGTGCTTAGATAACAATGGTGGTTGTTGGCAAGATAAATCAGCCAACATAACTGCTTGCAAG
cttcttttac CT-rich tract
tatcaaataaatgttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgatgcccacagctgcctgtgctcatacctgaaccaccttatcctagcttatcaaataaatgtttggaatgtattgtaaacttcttttacaatttacagATGTGGAGTCAAACGAGTGCTTAGATAACAATGGTGGTTGTTGGCAAGATAAATCAGCCAACATAACTGCTTGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA