Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttattgtgacttatctttttaattattctgattggaatcgagttgttcacctttaatctcttctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAATGCTCCTATTCCAATTGGAGCTAGCTTTGGTTTTCATGCTGGCGGCTGGG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G21660.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA13G31550.2 (Glycine max), 3'ss of exon 9
gtgagtttattgtgacttatctt----tttaattattctgattggaatcgagttgttcacctttaatctcttctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAATGCTCCTATTCCAATTGGAGCTAGCTTTGGTTTTCATGCTGGCGGCTGGG
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gtaatattatagcgtcttctgttgcatttttcatattctg-ttactggccttttgaccccattaaatatgatttttt-cagAGATATGGTCCTCCACCATCATATCCTCATCTGAAAATCCCTGGACTGAATGCTCCTATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA13G25110.1 (Glycine max), 3'ss of exon 9
-----gtgagt-ttattgtgacttatctttttaattattctgattggaatcgagttgttcacctttaatctcttctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAATGCTCCTATTCCAATTGGAGCTAGCTTTGGTTTTCATGCTGGCGGCTGGG
| ||| | ||||| | | | | || ||| ||||| | | | | | | | ||| | || | |||||||||||||| ||||| ||||| || |||||||| || || || ||||||||||| ||||| ||||||||| ||||||| ||| | || |||||||
gtaatatcagtgtctttgtggcatgtatgttgtattcttctggtcttggccctttcat--aacatcaatttttt--tcaccagAGATATGGTCCTCCTCCATCTTATCCTCATCTGAAGATCCCAGGCTTGAATGCTCCCATTCCCCCTGGAGCTAGTTTTGGTTACCATCCCGGTGGCTGGG
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA15G07760.1 (Glycine max), 3'ss of exon 9
-------gtgagtttattgtgacttatctttttaattattctgattggaatcgagttgttcacctttaatctcttctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAATGCTCCTATTCCAATTGGAGCTAGCTTTGGTTTTCATGCTGGCGGCTGGG
|| | || || || ||| ||||||||| | | || | | || ||| | || ||| |||||||||||||| || || || || || |||||||| || ||||| |||||||||| || || ||||||||||||||||| |||| |||| || ||||
gtaatattatagcctcttctgttgcatttttcatattattctgttcctggcctttttaccc-cattaaatatgtttttt--cagAGATATGGTCCTCCACCATCATATCCTCATCTGAAGATCCCTGGACTGAATGCTCCAATCCCCCCTGGAGCTAGCTTTGGTTATCATCCTGGTGGATGGG
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv00s0818g00010.t01 (Vitis vinifera), 3'ss of exon 1
---------gtgagtttattgtgacttatctttttaattattctgattggaatcgagttgttcacctt---taatctcttctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAATGCTCCTATTCCAATTGGAGCTAGCTTTGGTTTTCATGCTGGCGGCTGGG
| | ||| | | | | || || ||| | || ||| || | || | | || ||| ||||||||||||||||| || || || |||||||||||||| ||||| |||||||||||||||| ||| ||||||||||||| |||| |||| || ||||
gtcagatgagctaatttctcgcaattgattttgacctttacagaaccttcaactttgttttttcctttagctgactgtttatttttcagAGATATGGTCCGCCACCATCATATCCACATCTGAAAATCCCTGGGCTGAATGCTCCTATTCCTCCTGGTGCTAGCTTTGGTTATCATCCTGGTGGTTGGG
upper sequence: AT4G21660.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: PP1S98_7V6.1 (Physcomitrella patens), 3'ss of exon 9
-----------------------------------------------------------------------------------------------------gtgagtttattgtgacttatctttttaattattctgattggaatcgagttgttcacctttaatctc--ttctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAATGCTCCTATTCCAATTGGAGCTAGCTTTGGTTTTCATGCTGGCGGCTGGG
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gtgcgtgcagttgctctccactcttgtgaagttagggagtaaatctttttctttttactcaacattacacgtgtaacctgaactttttactgttatgaatgaagactattctgcaaattttgtttttcatgcctctg-ttagtgcct--ttggctgactttgtctgcggtttttctgcagAGATATGGGCCTCCTCCTTCTTATCCTCATCTTAAGATTCCTGGATTGAATGCACCAATACCAGAGGGGGCCTCTTTTGGCTATCATGCTGGAGGCTGGGMapped 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|164072760|gb|ES211967.1|ES211967EST: TGGCTGATTAACATGCAG AGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAAT
genomic: TGGCTGATTAACATGCAGgtgagtttat ... tctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAAT
EST:
gi|164178671|gb|EL997991.1|EL997991EST: TCTTGGTATGCCTGAAGGCGCTCCTCCCCCATGGCTGATTAACATGCAG AGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAA
genomic: TCTTGGTATGCCTGAAGGCGCTCCTCCCCCATGGCTGATTAACATGCAGgtgagtttat ... tctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttaattattctgattggaatcgagttgttcacctttaatctcttctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAATGCTCCTATTCCAATTGGAGCTAGCTTTGGTTTTCATGCTGGCGGCTGGG
ttcacctttaatctct CT-rich tract
attattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttattgtgacttatctttttaattattctgattggaatcgagttgttcacctttaatctcttctttgacagAGATATGGTCCGCCTCCTTCTTACCCACATCTGAAAATTCCTGGTTTGAATGCTCCTATTCCAATTGGAGCTAGCTTTGGTTTTCATGCTGGCGGCTGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG