Sequence
atgc intronic sequence ATGC exonic sequence...tgtttggtgtttcttggccttattgaatcttatgttgcatttactttctctacttaaggttgttttataattgcattttcaatgtttctctgtttcacagATAAAGAAAATACTCCAAAAACTGTAAATGATATGAAGCTCATCAATGCCGGGAAAATACTGGAGAACAATAGGACACTTGCTGAATCCAGGCTTCCTGT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G22050.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G22050.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os02g51500.2 (Oryza sativa), 3'ss of exon 1
tgtttggtgtttcttggccttattgaatcttatgttgcatttactttctctac---ttaaggttgttttataattgcattttcaatgtttctctgtttcacagATAAAGAAAATACTCCAAAAACTGTAAATGATATGAAGCTCATCAATGCCGGGAAAATACTGGAGAACAATAGGACACTTGCTGAATCCAGGCTTCCTGT
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---taattttgtaaagattcaatttcttcataatccatacttgttatccttatattccaaatttattttattaaagggattgttctttatctttttatggcagATAAGGAAATAACTCCAAAAACTGTCAATGACCTGAAGCTCATTAATGCCGGACGGATATTGGAGAATAACCGGACACTTGCTGAGTCCCGTGTTCCAGT
upper sequence: AT1G22050.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G003023_T01 (Zea mays), 3'ss of exon 1
-tgtttggtgtttcttggccttattgaatcttatgttgcatttactttctctacttaaggttgttttataattgcattttcaatgtttctc-tgt---ttcacagATAAAGAAAATACTCCAAAAACTGTAAATGATATGAAGCTCATCAATGCCGGGAAAATACTGGAGAACAATAGGACACTTGCTGAATCCAGGCTTCCTGT
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ttcctcagaatatttttatgtagct-actggcatatttcagt--cctccagaacctcgg--tgaactatatctgtgttgatactattttccatatatgttcacagATAAAGAAATAGCTCCAAAAACTGTCAATGATGTGAAGCTCATCAATGTTGGAAGGATACTGGAGAATAGCAGAACTCTTGCTGAATCTCGTGTCCCAGT
upper sequence: AT1G22050.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G012269_T01 (Zea mays), 3'ss of exon 1
-tgtttggtgtttcttggccttattgaatcttatgttgcatttactttctctacttaaggttgttttataattgcattttcaatgtttctctgt-ttcacagATAAAGAAAATACTCCAAAAACTGTAAATGATATGAAGCTCATCAATGCCGGGAAAATACTGGAGAACAATAGGACACTTGCTGAATCCAGGCTTCCTGT
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ctacacattggaacttttcagtgc-aaattctctgtttc-tcaatccatgcatgttgttcttgttttctgaatggaatttgttattttatttgtgctaacagATAAGGATATAACTCCAAAAACTGTTAATGACTTGAAGCTTATCAATGCTGGAAGGATATTGGAGAATAATCGGACACTTGCAGAGTCCCGTGTTCCAGTMapped 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|124783122|gb|EH873006.1|EH873006EST: TATGACTGTTTCTTCTCTTAAAGAGAAACTCATTTCTCAATGGCCTAAAG ATAAAGAAAATACTCCAAAAACTGTAAATGATATGAAGCT
genomic: TATGACTGTTTCTTCTCTTAAAGAGAAACTCATTTCTCAATGGCCTAAAGgtattttata ... tgtttcacagATAAAGAAAATACTCCAAAAACTGTAAATGATATGAAGCT
EST:
gi|86086185|gb|DR381944.1|DR381944EST: TATGACTGTTTCTTCTCTTAAAGAGAAACTCATTTCTCAATGGCCTAAAG ATAAAGAAAATACTCCAAAAACTGTAAATGATATGAAGCTCATCAATGCCG
genomic: TATGACTGTTTCTTCTCTTAAAGAGAAACTCATTTCTCAATGGCCTAAAGgtattttata ... tgtttcacagATAAAGAAAATACTCCAAAAACTGTAAATGATATGAAGCTCATCAATGCCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctctacttaaggttgttttataattgcattttcaatgtttctctgtttcacagATAAAGAAAATACTCCAAAAACTGTAAATGATATGAAGCTCATCAATGCCGGGAAAATACTGGAGAACAATAGGACACTTGCTGAATCCAGGCTTCCTGT
tgtttctctgtttc CT-rich tract
ttttataattgcattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttggtgtttcttggccttattgaatcttatgttgcatttactttctctacttaaggttgttttataattgcattttcaatgtttctctgtttcacagATAAAGAAAATACTCCAAAAACTGTAAATGATATGAAGCTCATCAATGCCGGGAAAATACTGGAGAACAATAGGACACTTGCTGAATCCAGGCTTCCTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
tgtttgg