Sequence
atgc intronic sequence ATGC exonic sequenceGTTACTGGTGTTGGAGTCAACACTGAATGGGGATTGCTGATGGCCAGTATTTCTGAAGACAATGGTGAAGAAACTCCCTTGCAGgttgatatctttgatcattgttaaggaatctttaaatgtttacaaatcaagctaatctttgacttgcttgaaccag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G57110.2 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 5'ss of exon 12
GTTACTGGTGTTGGAGTCAACACTGAATGGGGATTGCTGATGGCCAGTATTTCTGAAGACAATGGTGAAGAAACTCCCTTGCAGgttgatatctttgatcattgttaaggaatctttaaatgtttacaaatcaagctaatctttgacttgcttgaaccag
|| || | ||||| | ||||||||||||||| |||| ||||| || ||||||||||| |||||||||||| || ||||||||| | ||| | ||||| | | | | ||| | | | | | | || | | || | ||
GTGACCGCAGTTGGCATTAACACTGAATGGGGACTGCTAATGGCAAGCATTTCTGAAGATTCTGGTGAAGAAACACCTTTGCAGgtttgattttttaac--ttgttgact--tttgcacgagttcatgagttgacatgaattt--attgttctggagtag
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G140328_T04 (Zea mays), 5'ss of exon 12
GTTACTGGTGTTGGAGTCAACACTGAATGGGGATTGCTGATGGCCAGTATTTCTGAAGACAATGGTGAAGAAACTCCCTTGCAGgttgatatctttgatcattgttaaggaatctttaaatgtttacaaatcaagctaatctttgacttgcttgaaccag
|| |||| |||||||||||||||||||||||| ||||| ||||| || || |||||||| |||||||| || || | |||||| | | | | ||| | | | | ||||| | ||||| | | | |
GTAACTGCTGTTGGAGTCAACACTGAATGGGGGTTGCTAATGGCAAGCATATCTGAAGATTCGGGTGAAGAGACACCACTCCAGgtttgattttgttgttgttgcca--gcctttgcgcgagtttatttcctttacatgcctttgttgttccggtgcag-
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA17G06520.1 (Glycine max), 5'ss of exon 14
GTTACTGGTGTTGGAGTCAACACTGAATGGGGATTGCTGATGGCCAGTATTTCTGAAGACAATGGTGAAGAAACTCCCTTGCAGgttgatatctttgatcattgttaaggaatctttaaatgtttacaa-atcaagctaatcttt--gacttgcttgaaccag
|| || | |||||| | || ||||||||||| | || |||||||| ||||| ||||||||||||||||||||||| |||||||| | || || || | || || || || | | | ||| || | | | || | ||
GTAACAGCTGTTGGTATTAATACTGAATGGGGGCTTCTAATGGCCAGCATTTCAGAAGACAATGGTGAAGAAACTCCTTTGCAGgtcccctttttacatgcagtttgtttttttattttctgcttctaatagtatgttaacctatataaagttctcaatatag
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA13G00420.1 (Glycine max), 5'ss of exon 11
GTTACTGGTGTTGGAGTCAACACTGAATGGGGATTGCTGATGGCCAGTATTTCTGAAGACAATGGTGAAGAAACTCCCTTGCAGgttgatatctttgatcattgttaaggaatctttaaatgtttacaa-atcaagctaatctt--tgacttgcttgaaccag
|| || | |||||| |||| ||||||||||| | || ||| |||| ||||| ||||||||||| ||||||||||| |||||||| | || || || | || || || | | | | | | || | | | | | ||
GTAACGGCTGTTGGTATCAATACTGAATGGGGTCTTCTAATGACCAGCATTTCCGAAGACAATGGCGAAGAAACTCCTTTGCAGgtcccctttttacat-gcagtctgttttttatttcctgcttctgatagtatgtttacctacataaagttttcaatatag
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA09G06890.1 (Glycine max), 5'ss of exon 11
GTTACTGGTGTTGGAGTCAACACTGAATGGGGATTGCTGATGGCCAGTATTTCTGAAGACAATGGTGAAGAAACTCCCTTGCAGgttgatatctttg--atcattgttaaggaatctttaaatgtttacaaatcaagctaatctttgacttgcttgaac-cag
|| ||||||||||| ||||| ||||||||||| | || ||||| || || || ||||| | |||||||||||| || |||||||| | | || | | ||| | | | | || | | | || | | || | || || ||||| ||
GTCACTGGTGTTGGTGTCAATACTGAATGGGGGCTTCTAATGGCTAGCATCTCAGAAGATACTGGTGAAGAAACACCATTGCAGgtccttttgttagttgtgatttctgattgagttctattt-ctcataattta--ctcacctatgcaagttttgaatatag
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 5'ss of exon 14
GTTACTGGTGTTGGAGTCAACACTGAATGGGGATTGCTGATGGCCAGTATTTCTGAAGACAATGGTGAAGAAACTCCCTTGCAGgttgatat--ctttgat-cattgttaaggaatctttaaatgttta--caaatcaagct----aatctttgacttgcttgaaccag------------
|| || ||||||| | || ||||||||||||||||| ||||| ||||| || ||||||| ||||||||| || || ||||||||| | || | || |||| | | | || ||| | ||| ||| ||| ||||| |||| |
GTAACAAGTGTTGGGATAAATACTGAATGGGGATTGCTCATGGCTAGTATATCAGAAGACACTGGTGAAGAGACGCCATTGCAGgttacctttactctaatacattctactttcaaccttggttgtcaaggtggttcatgcttcacaatacatgact-acttgtcaatgccttatttatagMapped 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|116481548|gb|EG524140.1|EG524140EST: TGCTGAT-GCCAGTATTTCTGAAGACAATGGTGAAGAAACTCCCTTGCAG GTGCGCTTAAATGGGGTAGCTACTTTTATTGGTTCAATTGGCTTAGCGGTG
genomic: TGCTGATGGCCAGTATTTCTGAAGACAATGGTGAAGAAACTCCCTTGCAGgttgatatct ... cttgaaccagGTGCGCTTAAATGGGGTAGCTACTTTTATTGGTTCAATTGGCTTAGCGGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTACTGGTGTTGGAGTCAACACTGAATGGGGATTGCTGATGGCCAGTATTTCTGAAGACAATGGTGAAGAAACTCCCTTGCAGgttgatatctttgatcattgttaaggaatctttaaatgtttacaaatcaagctaatctttgacttgcttgaaccag
- - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA