Sequence
atgc intronic sequence ATGC exonic sequenceTTACTCATCAGAGGTTAAGAAAACAGAGGTTCTCATGGAGAATTTTAGACGTGCCATTGGTCTACGTATCAAGGAAACCAAAGAAGTCTATGAAGGGGAGgtgtgttgctatttgcggtttcttttgctgtgttcttatgcaatagcatgtctcgctaattggtttttgacatgttgtccttgtgttctag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22330.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA07G02170.1 (Glycine max), 5'ss of exon 3
TTACTCATCAGAGGTTAAGAAAACAGAGGTTCTCATGGAGAATTTTAGACGTGCCATTGGTCTACGTATCAAGGAAACCAAAGAAGTCTATGAAGGGGAGgtgtgttgctatttgcggtttcttttgctgtgttcttatgcaatagcatgtctcgctaattg--gtttttgacatgttgtccttgtgttctag
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TTACTCCTCAGAAGTAAAGAAGACCGAGGTTCTCATGGAAAATTTTAGACGGGCCATTGGTCTGCGTATTAAGGAAAACAAGGAAGTATATGAAGGAGAGgtgagtt----tgtgctattctcttgtcaaaactcggatgtgattgtgccttgtacatattgtagtttatgttttgctggtcttgt--ttaag
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA08G21830.1 (Glycine max), 5'ss of exon 3
TTACTCATCAGAGGTTAAGAAAACAGAGGTTCTCATGGAGAATTTTAGACGTGCCATTGGTCTACGTATCAAGGAAACCAAAGAAGTCTATGAAGGGGAGgtgtgttgctatttgcggtttcttttgctgtgttcttatgcaatagcatgtctcgctaat-tggtttttgacatgttgtcc-ttgtgttctag
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TTACTCCTCGGAAGTAAAGAAGACTGAGGTTCTCATGGAAAATTTTCGACGGGCCATTGGTCTGCGTATCAAGGAAAACAAGGAAGTATACGAAGGGGAGgtgagtttgta---gctattctcttgtcaaaactcggatgtgattg--tgccttgttcatattgttgtttatgttttgctggtcttgtttaag
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv06s0004g02910.t01 (Vitis vinifera), 5'ss of exon 3
TTACTCATCAGAGGTTAAGAAAACAGAGGTTCTCATGGAGAATTTTAGACGTGCCATTGGTCTACGTATCAAGGAAACCAAAGAAGTCTATGAAGGGGAGgtgtgttgctatttgc----ggtttcttttgctg-tgttcttat------gcaatagcatgtctcgctaattg-------gtttttga--catgttgtccttgtgttctag-------
||||||||||| |||||||| ||| || | ||||| ||||| |||| || |||||||||||||||||||||| || ||||| |||||||| |||| ||| | | |||| ||||| | | | | | | |||| |||| | ||| | ||| | || || | | | || |||
----TCATCAGAGGTAAAGAAAACTGAGATTTTAATGGAAAATTTCCGACGGGCTATTGGTCTACGTATCAAGGAAAATAAGGAAGTGTATGAAGGAGAGGCAAgttatcactgattatgagttttttttgttaatagtttgacttgccagtaatatcatgatctttttgttgtattatcatctttaaatcaagtagcttctcttttttaggtgacag
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S40_79V6.1 (Physcomitrella patens), 5'ss of exon 2
--------------------------------TTACTCATCAGAGGTTAAGAAAACAGAGGTTCTCATGGAGAATTTTAGACGTGCCATTGGTCTACGTATCAAGGAAACCAAAGAAGTCTATGAAGGGGAGgtgtgttgctatttg--cggtttcttttgctgtgttcttatgcaatagcatgtctcgctaattggtttttgacatgttgtccttgtgttctag
||||||||| || |||||||| || ||||| |||||||||||||| | || || || | ||||| |||||| | |||| || || || | |||| | | | || | | || || || || |||
ATTCTGTTCTGTCCGATGGTAGGGTCCGAAGTTTACTCATCCGAAGTTAAGAAGACGGAGGTGCTCATGGAGAATTTCCACTGCgcaatcggatttcgtatttaggaaaactaagaggtgtacgaggacgaggcaagcaacaacatgattcatatacactggtggatttttgaatcgagagatg-----------------------------------------
upper sequence: AT5G22330.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S4_73V6.1 (Physcomitrella patens), 5'ss of exon 4
TTACTCATCAGAGGTTAAGAAAACAGAGGTTCTCATGGAGAATTTTAGACGTGCCATTGGTCTACGTATCAAGGAAACCAAAGAAGTCTATGAAGGGGAGgtgtgttgcta---tttgcggtttcttttgctgt----gttcttatgcaatagcatgtctcgctaattggtttttgacatgttgtccttgtgttctag---
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TTACTCATCAGAAGTTAAGAAGACGGAAGTTCTTATGGAGAATTTCCGCCGTGCAATTGGGCTTCGTATTAAAGAGAACAAAGAGGTTTACGAGGGCGAGgtaaggcaacaagttttccggctctataggatattacgattcatatttaatggtagatttttgtagc-aatagccatgaaatcaataaaagattcttgcgaMapped 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|116443983|gb|EG486575.1|EG486575EST: GTGCCATTGGTCTACGTATCAAGGAAACCAAAGAAGTCTATGAAGGGGAG GTCACCGAGCTGTCACCAGAAGAAACTGAAAGCCTCACTGGAGGTTATGGT
genomic: GTGCCATTGGTCTACGTATCAAGGAAACCAAAGAAGTCTATGAAGGGGAGgtgtgttgct ... tgtgttctagGTCACCGAGCTGTCACCAGAAGAAACTGAAAGCCTCACTGGAGGTTATGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTACTCATCAGAGGTTAAGAAAACAGAGGTTCTCATGGAGAATTTTAGACGTGCCATTGGTCTACGTATCAAGGAAACCAAAGAAGTCTATGAAGGGGAGgtgtgttgctatttgcggtttcttttgctgtgttcttatgcaatagcatgtctcgctaattggtttttgacatgttgtccttgtgttctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT