Sequence
atgc intronic sequence ATGC exonic sequencegtatgtaatctttttgttctgagacttaaccttttttcttgtgggtttactctctgtgaagttgaactttgattttatagGCTTTCATTCCAAACACTGGTCGTGGTGTACAAGGTGCAACCTCTCATTGTTTGGGACAAAACTTTGCGAAGATGTTTGAGATCAACTTTGAGAATGAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G62120.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G62120.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os12g25710.3 (Oryza sativa), 3'ss of exon 7
-------------------------------gtatgtaatctttttgt------tctga-gacttaaccttttttcttgtgggtttactctctgtgaagttgaactttgattttatagGCTTTCATTCCAAACACTGGTCGTGGTGTACAAGGTGCAACCTCTCATTGTTTGGGACAAAACTTTGCGAAGATGTTTGAGATCAACTTTGAGAATGAGA
|| | ||| ||| |||| || | | || | | |||| | | || || | | ||| |||| |||||||||||||| || |||||||||||||| ||||| || |||||| | || ||||||||||| ||||||||||| |||| ||||||||||| |
gtattaatatgaaatgtttgcttcattccacccgattagtttttctgtagttaccctgatgaagaagagtacttatctttatatttagtaataataaaattttatcata--tttgcagGCCTTCATTCCAAACACAGGACGTGGTGTACAAGGGGCAACATCACATTGTCTTGGTCAAAACTTTGCAAAGATGTTTGATATCACTTTTGAGAATGATA
upper sequence: AT3G62120.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G094123_T01 (Zea mays), 3'ss of exon 7
-------------------------------gtatgtaatctttttgttctgagacttaaccttttttct---tgtgggtttactctctgtgaagttgaactttgattttatagGCTTTCATTCCAAACACTGGTCGTGGTGTACAAGGTGCAACCTCTCATTGTTTGGGACAAAACTTTGCGAAGATGTTTGAGATCAACTTTGAGAATGAGA
| ||| || | | | || | || | | | | || | | || | | || ||| ||| |||| ||||||||||||||||||||||| ||||||| |||||||| || ||| | || ||||||||||| ||||||||||| |||| |||||||||||||
gtattgatacattcctaaaatattgtagcctttccttaactaacctgatgaaaaaaggaaattaattccagtattttattgtaatatgcttgttgctaaatattgttttaccagGCCTTCATTCCAAACACTGGTCGTGGCATACAAGGCGCAACCTCACACTGTCTTGGTCAAAACTTTGCCAAGATGTTTGATATCACTTTTGAGAATGAGA
upper sequence: AT3G62120.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA03G38340.1 (Glycine max), 3'ss of exon 8
----gtatgtaatctttttgttctgagacttaaccttttttcttgtgg-gtttactctctgtgaagtt--gaactttgatttta-tagGCTTTCATTCCAAACACTGGTCGTGGTGTACAAGGTGCAACCTCTCATTGTTTGGGACAAAACTTTGCGAAGATGTTTGAGATCAACTTTGAGAATGAGA
| | | | || ||| | ||| | || | ||| || || | | || || || || ||||| ||||| || ||||||||||||||||||||| ||||||||||||| |||||||||||||| ||||| ||||| || ||||||||||| |||||||| ||||| |
gtatatgtttgaaattattgcataaacactgttatgctattttaatggtgtaagctgcttataaaattttgatgttcaattttgctagGCATTTATTCCAAACACTGGTCGTGGTATACAAGGTGCAACTTCTCATTGTTTGGGCCAAAATTTTGCTAAAATGTTTGAGATAAACTTTGAAAATGAAA
upper sequence: AT3G62120.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA19G40930.4 (Glycine max), 3'ss of exon 8
--gtatgtaatctttttgttctgagacttaaccttttttcttgtgggtttactctctgtgaagtt--gaactttgatttta-tagGCTTTCATTCCAAACACTGGTCGTGGTGTACAAGGTGCAACCTCTCATTGTTTGGGACAAAACTTTGCGAAGATGTTTGAGATCAACTTTGAGAATGAGA
||||| || ||| | | || | |||| || | || || | | || || || || ||||| ||||| || ||||||||||||||||||||| | ||||||||||| |||||||||||||| ||||| ||||| || ||||||||||| |||||||| ||||| |
gtatatgtctgattcttgcataaacagttgtgttattttaatg-gtgtaagctgcttataaaattttgatgttcaattttgctagGCATTTATTCCAAACACTGGTCGTGGTATCCAAGGTGCAACTTCTCATTGTTTGGGCCAAAATTTTGCTAAAATGTTTGAGATAAACTTTGAAAATGAAA
upper sequence: AT3G62120.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv07s0005g02620.t01 (Vitis vinifera), 3'ss of exon 8
------------------------------------------------------gtatgtaatctttttgttctgag-acttaaccttttttcttgtgggtttactctctg-tgaagttgaactttgattttat--agGCTTTCATTCCAAACACTGGTCGTGGTGTACAAGGTGCAACCTCTCATTGTTTGGGACAAAACTTTGCGAAGATGTTTGAGATCAACTTTGAGAATGAGA
|| || | |||| | | | | || | | | || ||| | | | | || ||| ||| | |||| || ||||||||||||||||||||| |||| |||||||| || |||||||| || ||||| ||||| || |||||||| || | |||||| |||||||
gtacttgatttttatttatctgcttgcactccatcctttgtccatcatccaatgaattgcaaaccgtttgcattaactattctgtgttctatgatagaagtaaactgtgtaattatgtctgtgtttaccttttttcagGCCTTTATTCCAAACACTGGTCGTGGTATACAGGGTGCAACTTCACATTGTTTAGGTCAAAATTTTGCAAAAATGTTTGATATAACCTTTGAAAATGAGAMapped 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|124829355|gb|EH913946.1|EH913946EST: AGAGTGAAAATGAGAAGTTTGCTGGTGGACTTTACACTACAAGTGTAGAG GCTTTCATTCCAAACACTGGTCGTGGTGTACAAGGT
genomic: AGAGTGAAAATGAGAAGTTTGCTGGTGGACTTTACACTACAAGTGTAGAGgtatgtaatc ... gattttatagGCTTTCATTCCAAACACTGGTCGTGGTGTACAAGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaccttttttcttgtgggtttactctctgtgaagttgaactttgattttatagGCTTTCATTCCAAACACTGGTCGTGGTGTACAAGGTGCAACCTCTCATTGTTTGGGACAAAACTTTGCGAAGATGTTTGAGATCAACTTTGAGAATGAGA
aactttgattttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtaatctttttgttctgagacttaaccttttttcttgtgggtttactctctgtgaagttgaactttgattttatagGCTTTCATTCCAAACACTGGTCGTGGTGTACAAGGTGCAACCTCTCATTGTTTGGGACAAAACTTTGCGAAGATGTTTGAGATCAACTTTGAGAATGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA