Sequence
atgc intronic sequence ATGC exonic sequenceTACTCTTGCTGGATTTAGGAATGGCAAGTTTGCAACATTGGTGGCTACAAATGTTGCTGCTCGTGGTCTAGATATCAATGATGTGCAGTTAATTATCCAGgttagttactgcccatgagctttattcatctttggttaatgcctcgttggtgttctaacatcacatcttgtttaaatgtgttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G62190.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G62190.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G164956_T02 (Zea mays), 5'ss of exon 8
TACTCTTGCTGGATTTAGGAATGGCAAGTTTGCAACATTGGTGGCTACAAATGTTGCTGCTCGTGGTCTAGATATCAATGATGTGCAGTTAATTATCCAGgttagttactgcccatgagctttattcatctttggttaatgcctcgttggtgttctaacatcacat-cttgtttaaatgtgttacag
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CATTCTTGCTGGATTTCGTAGCGGGAAGTTCCAGGTTTTGGTTGCTACAAATGTGGCGGCTCGTGGTCTGGATATTAATGATGTGCAGCTTATCATTCAGgt------------atgacctgt-tttgcagttgagtaatttctaataggtaggttaagttcttatgtttgcattaaaaccttccag
upper sequence: AT5G62190.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G38680.1 (Glycine max), 5'ss of exon 8
TACTCTTGCTGGATTTAGGAATGGCAAGTTTGCAACATTGGTGGCTACAAATGTTGCTGCTCGTGGTCTAGATATCAATGATGTGCAGTTAATTATCCAGgttagttactgcccatgagctttattcatctttggttaatgcctcgttggtgttctaacatcacatcttgtt-taaatgtgttacag---
|||||| |||| |||||| ||| || || ||||| || || |||||||| || ||||| ||||| |||||||||||||| ||||||||||||||||| | || ||| | | | | | ||| | | | || ||| |||| | || || | | | | || |
TACTCTGTCTGGCTTTAGGTCTGGGAAATTCATGACATTAGTTGCCACAAATGTGGCAGCTCGAGGTCTTGATATCAATGATGTTCAGTTAATTATCCAGgt-acttttgatgaatgtacatacaatgtatcagattatt-ctttttttttgtcataacctggtatgctgatatttgtattttgtatcag
upper sequence: AT5G62190.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA20G29060.1 (Glycine max), 5'ss of exon 8
TACTCTTGCTGGATTTAGGAATGGCAAGTTTGCAACATTGGTGGCTACAAATGTTGCTGCTCGTGGTCTAGATATCAATGATGTGCAGTTAATTATCCAGgt-tagttactgcccatgagctttattcatct--ttggttaatgcctcgttggtgttctaacatcacatcttgtttaaatgtgttacag
||| || |||| |||||| ||| || || ||||| || || |||||||| || ||||| ||||| ||||| |||||||| ||||||||||| ||||| || || | | || ||| | || | |||| | | || | | || | | || | ||
TACACTGTCTGGCTTTAGGTCTGGGAAATTCATGACATTAGTTGCCACAAATGTGGCAGCTCGAGGTCTTGATATTAATGATGTTCAGTTAATTATACAGgtacttttgatgattgtaaatacaatgtatcagatcattttttttttcgtcactaccttg-tatgcctgatatttgtattttgatttagMapped 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|47828150|gb|CK117834.1|CK117834EST: ATGTTGCTGCTCGTGGTCTAGATATCAATGATGTGCAGTTAATTATCCAG TGTGAGCCTCCACGTGAAGTTGAAGCATATATTCATCGTTCAGGCCGAACA
genomic: ATGTTGCTGCTCGTGGTCTAGATATCAATGATGTGCAGTTAATTATCCAGgttagttact ... tgtgttacagTGTGAGCCTCCACGTGAAGTTGAAGCATATATTCATCGTTCAGGCCGAACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TACTCTTGCTGGATTTAGGAATGGCAAGTTTGCAACATTGGTGGCTACAAATGTTGCTGCTCGTGGTCTAGATATCAATGATGTGCAGTTAATTATCCAGgttagttactgcccatgagctttattcatctttggttaatgcctcgttggtgttctaacatcacatcttgtttaaatgtgttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT