Sequence
atgc intronic sequence ATGC exonic sequenceGCGGCTTATAATTCCGCTAAGTCAAAGAACAAGTTCCATCTTTGGGGTAGCCATTGGAGACATGGAGATTCGTTACTTTTTTCTCTTGCATGTGCTCAGgtatttgagattcttctcttttcttcctgttctagttagtaatggagatagtatagacgttgaaagacatttttgtgtaccatacgtattctctccaatgtgatttggtagtgattatggtcagcaagctaattttgttgcaatgaggtcggtgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G51150.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G51150.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os07g31260.1 (Oryza sativa), 5'ss of exon 4
GCGGCTTATAATTCCGCTAAGTCAAAGAACAAGTTCCATCTTTGGGGTAGCCATTGGAGACATGGAGATTCGTTACTTTTTTCTCTTGCATGTGCTCAGgtatt----tgagattcttctcttttcttcctgttc--tagttagtaatggagatagtatagacgttgaaagacatttttgtgtaccatacgtattctctccaatgtgatttggtagtgattatggtcagcaagctaattttgttgcaatgaggtcggtgcag
|| |||||||| || ||||| ||||||| || || ||||||| ||||||||||| ||||||||| | ||||||||||| ||||| | ||| |||||| ||| || | ||| ||| | | || || ||||||||| || | | | | | | |||
TGTGCATATAATTCTGCAAAGTCTAAGAACAGATTTCACTTTTGGGGAAGCCATTGGAGGCATGGAGATGCATTACTTTTTTCACTTGCGTCTGCCCAGgtaacaagatgaagttgaccgatttgctttgggattattatcctgttatggagataagatctatataatcatatgaaatatccttccag--------------------------------------------------------------------------
upper sequence: AT5G51150.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G175799_T02 (Zea mays), 5'ss of exon 4
GCGGCTTATAATTCCGCTAAGTCAAAGAACAAGTTCCATCTTTGGGGTAGCCATTGGAGACATGGAGATTCGTTACTTTTTTCTCTTGCATGTGCTCAGgtatttgagattcttctcttttcttcctgttctagttagta-atggagatagta--tagacgttgaaagacatttttgtgtaccatacgtattctctccaatgtgatttggtagtgattatggtcagcaagctaattttgttgcaatgaggtcggtgcag
|| |||||||| || || || |||||||| || ||| ||||||| ||||||||||||||||||||| | || |||||||| | |||||||| |||||| | | | | | | | || || ||| | || | | | |||| | | || ||| | || | ||||| | |
TGTGCATATAATTCTGCAAAATCTAAGAACAAATTTCATTTTTGGGGAAGCCATTGGAGACATGGAGATGCATTGCTTTTTTCATTAGCATGTGCCCAGgtaacaaaatgaagctacctaacactatagtttgctttttatatgaatatgattcttttatgttgggaaaggattgtgta-atcaccaggattctgtttccag---------------------------------------------------------
upper sequence: AT5G51150.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G33510.1 (Glycine max), 5'ss of exon 4
GCGGCTTATAATTCCGCTAAGTCAAAGAACAAGTTCCATCTTTGGGGTAGCCATTGGAGACATGGAGATTCGTTACTTTTTTCTCTTGCATGTGCTCAGgtatttgagattcttctcttttcttcctgttctagttagtaatggagatagtatagacgttgaaagacatttttgtgtaccatacgtattctctccaatgtgatttggtagtgattatggtcagcaagctaattttgttgcaatgaggtcggtgcag
||||||||||| || || || ||||||||||| || |||||||| || |||||||||||||||||||| || || ||| | ||||| ||||| |||||||| | || | ||| || | ||| || | | ||| | ||| || |||| ||||| || | ||| || || ||
TGTGCTTATAATTCTGCAAAATCTAAGAACAAGTTTCACCTTTGGGGGAGTCATTGGAGACATGGAGATTCATTGCTGTTTGCCCTTGCTTGTGCACAGgtattaaaacctcaatctgacttttcatgctagggttt-tattcttaac--tatcacccttgtaa--tatttatgtgtgcctaata-attgatatcagggtaatag---------------------------------------------------
upper sequence: AT5G51150.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G34070.1 (Glycine max), 5'ss of exon 4
GCGGCTTATAATTCCGCTAAGTCAAAGAACAAGTTCCATCTTTGGGGTAGCCATTGGAGACATGGAGATTCGTTACTTTTTTCTCTTGCATGTGCTCAGgtatttg-agattcttctcttttcttcctgttctagttagtaatggagatagtatagacgttgaaagacatttttgtgtaccatacgtattctctccaatgtgatttggtagtgattatggtcagcaagctaattttgttgcaatgaggtcggtgcag
||||||||||| || || || || |||||||| || |||||||| || |||||||||||||||||||| || || ||| | ||||| ||||| |||||||| | | || | ||| | |||| | || | | ||| | ||| || ||| ||||| || | ||| || | | |
TGTGCTTATAATTCTGCAAAATCTAAAAACAAGTTTCACCTTTGGGGGAGTCATTGGAGACATGGAGATTCATTGCTGTTTGCCCTTGCTTGTGCACAGgtattaataaaacctcaatctgacttttcatgctagggttttattctta-actatcacccttgtaa--tctttatgtgtgcctgata-attgatatcagtataa------------------------------------------------------
upper sequence: AT5G51150.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv16s0039g02700.t01 (Vitis vinifera), 5'ss of exon 4
GCGGCTTATAATTCCGCTAAGTCAAAGAACAAGTTCCATCTTTGGGGTAGCCATTGGAGACATGGAGATTCGTTACTTTTTTCTCTTGCATGTGCTCAGgtatt-tgagattcttctcttttcttcctgttctagttagtaatggagatagtatagacgttgaaagacatttttgtgtaccatacgtattctctccaatgtgatttggtagtgattatggtcagcaagctaattttgttgcaatgaggtcggtgcag
||||| ||||| || ||||| ||||||||||| || || ||||| ||||||||||||||||||||||| ||||| ||| || | |||||||| |||||| | || | | | | | |||| | ||| | ||| ||||| || | ||||| || || | ||| | | ||||
TGTGCTTACAATTCTGCAAAGTCTAAGAACAAGTTTCACCTCTGGGGAAGCCATTGGAGACATGGAGATTCCTTACTCTTTGCTTTGGCATGTGCCCAGgtaacacaaaggtcacataatctggctgtatgctagctcttaactca--tagc-----------------tttttctgaatcatacttaatccggtttttctgaatcatacttaattac---------------------------------------Mapped 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|164204458|gb|ES029033.1|ES029033EST: TACTTTTTTCTCTTGCATGTGCTCAG GTTATGTATTCCTTTATAATGCGTCCTGAAACCTTGCCAAAATCATATAGA
genomic: TACTTTTTTCTCTTGCATGTGCTCAGgtatttgaga ... gtcggtgcagGTTATGTATTCCTTTATAATGCGTCCTGAAACCTTGCCAAAATCATATAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCGGCTTATAATTCCGCTAAGTCAAAGAACAAGTTCCATCTTTGGGGTAGCCATTGGAGACATGGAGATTCGTTACTTTTTTCTCTTGCATGTGCTCAGgtatttgagattcttctcttttcttcctgttctagttagtaatggagatagtatagacgttgaaagacatttttgtgtaccatacgtattctctccaatgtgatttggtagtgattatggtcagcaagctaattttgttgcaatgaggtcggtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT