Sequence
atgc intronic sequence ATGC exonic sequenceGATCTTCCTTCTCCTGAAGCTATCCAAATTGCAAACAACATATCAAATCTTGGTCAGATCTACAACAGAGAGGATAGTTCAACTGATGTTCAGgtaaagcatgaataagcttgcagatatggaccagttagggatcctgtacatattatacataaacaaagctgagttttccacatatttccag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G52100.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G52100.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os03g02570.1 (Oryza sativa), 5'ss of exon 6
--------GATCTTCCTTCTCCTGAAGCTATCCAAATTGCAAACAACATATCAAATCTTGGTCAGATCTACAACAGAGAGGAT-------AGTTCAACTGATGTTCAGgtaaa------gcatga--ataagcttgcagatatgg--accagttagggatcctgtaca---tattataca-taaacaaagctgagttttccacatatttccag------------------------------------------------------------------
||| | || || | || || || || |||||||| || |||||| ||||||||||||| |||||||| || ||| | | || | | ||| ||| |||| | || | |||| | || | | | |||| || |||||| | | |||| | | | ||| ||
CCTGGCAGGATTTGCCATCACAAGATGCAATACAGATTGCAAATAATATATCAGATCTTGGTCAGATATACAACAGGGAAGATCTCTGATAATCCAgtaagttgtgagggaaatattttgcatcactatctatctaatgatacagaaacggatattgtagtctgttcagttcattataaaacagtgaaagtacaaactggaatcagttttcacctctataacagcttacagctgcacaatactgtttcacaaaactaatggacaaatgttttggaaaag
upper sequence: AT5G52100.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G044247_T01 (Zea mays), 5'ss of exon 7
GATCTTCCTTCTCCTGAAGCTATCCAAATTGCAAACAACATATCAAATCTTGGTCAGATCTACAACAGAGAGGATA------------GTTCAACTGATGTT--CAGgtaaagcatgaataagct-tgcagatatggaccagttagggatcctgtacatattatacataaacaaagctgagttttccacatatttccag---------------
|||||||| || | || || ||||| |||||||||||||||||| | ||||||||||| |||||||| || |||| || || ||| ||| | | | || | | | || | | | | | | | || | || | | | | || | | ||
GATCTTCCATCGCAAGATGCAATCCAGATTGCAAACAACATATCAGACCTTGGTCAGATATACAACAGGGAAGATATGGATTCCAGCAGTCCAgtaagtgtcgacagttgcaattatactacgttgcgtgcatttctttctctctcttttttttttggtcacatgtacaagtacaaagaaagagtgaactgactgacaagtgttttggaaaaagMapped 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|86083449|gb|DR379208.1|DR379208EST: CAAATCTTGGTCAGATCTACAACAGAGAGGATAGTTCAACTGATGTTCAG GCAAGAGGTCAAGTAATCGGAGAAGACGGGGTTCGTGTTCACAGTATGGTT
genomic: CAAATCTTGGTCAGATCTACAACAGAGAGGATAGTTCAACTGATGTTCAGgtaaagcatg ... atatttccagGCAAGAGGTCAAGTAATCGGAGAAGACGGGGTTCGTGTTCACAGTATGGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATCTTCCTTCTCCTGAAGCTATCCAAATTGCAAACAACATATCAAATCTTGGTCAGATCTACAACAGAGAGGATAGTTCAACTGATGTTCAGgtaaagcatgaataagcttgcagatatggaccagttagggatcctgtacatattatacataaacaaagctgagttttccacatatttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT