Sequence
atgc intronic sequence ATGC exonic sequencegttgtttcctttaaaaaactctggttccgagtgttatattaacgtggcttgtttattcattcatttatttccattcttcatctaccagTTCGAGGATATTGGAACACATGGAACAAAAGTAATTATATACAACTTGTGGCTTAATGATGAAGGAATCTATGAGCTGAGTTTTGACGACGATGATGTG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G36290.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G36290.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA02G05800.1 (Glycine max), 3'ss of exon 9
---------gttgtttcctttaaaaaactctggttccgagtgttatattaacg-tggcttgtttattcattcatttatttccattcttcat--ctaccagTTCGAGGATATTGGAACACATGGAACAAAAGTAATTATATACAACTTGTGGCTTAATGATGAAGGAATCTATGAGCTGAGTTTTGACGACGATGATGTG
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gaatgtattgtagagaaccattgataactcttctttctacacttaaaaagttggttagttgtggattcctttcattgaccagtttgtttatacttttcagTTTGATGATATAGGATCACATGGAACCAAAGTTGTAATATACAATTTGTGGTTGAATGATGAAGGGATATATGAATTGAGTTTTGATGATGATGCTGAG
upper sequence: AT4G36290.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA16G24450.1 (Glycine max), 3'ss of exon 7
---------gttgtttcctttaaaaaactctggttccgagtgttatattaacg-tggcttgtttattcattcatttatttccattcttcat--ctaccagTTCGAGGATATTGGAACACATGGAACAAAAGTAATTATATACAACTTGTGGCTTAATGATGAAGGAATCTATGAGCTGAGTTTTGACGACGATGATGTG
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gagtgtattgtagagagccattgataactcttctttctacacttaaaaagttggtaagttgtggactcctttcattgaccagtttgtttatacttttcagTTTGATGATATAGGATCACATGGAACCAAAGTTGTAATATACAATTTGTGGTTGAATGATGAAGGGATATATGAATTGA--------------------
upper sequence: AT4G36290.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv04s0023g02740.t01 (Vitis vinifera), 3'ss of exon 8
----gttgtttcctttaaaaaactctggttccgagtgttatattaacgtggctt---gtttattcattcat-ttatttccattcttcatc---tac-cagTTCGAGGATATTGGAACACATGGAACAAAAGTAATTATATACAACTTGTGGCTTAATGATGAAGGAATCTATGAGCTGAGTTTTGACGACGATGATGTG
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taatactcaacattctaagagatgttaattacaactaatttttttttttaccttttcattgatgcattcttattatctgatttgcttgttgcatattcagTTTGAGGATATTGGACCACATGGAACAAAAATAATTATATACAACCTATGGCTGAATGATGAAGGCATATTTGAATTGAATTTCGACGATGATGATGAGMapped 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|125223870|gb|EL237955.1|EL237955EST: TTCTTCTCAAATGGTCCCCGTTTTCAACAATGGTCGAACTTTTGCAGCAG TTCGAGGATATTGGAACACATGGAACAAAAGTAATTATATACAACTT
genomic: TTCTTCTCAAATGGTCCCCGTTTTCAACAATGGTCGAACTTTTGCAGCAGgttgtttcct ... catctaccagTTCGAGGATATTGGAACACATGGAACAAAAGTAATTATATACAACTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatattaacgtggcttgtttattcattcatttatttccattcttcatctaccagTTCGAGGATATTGGAACACATGGAACAAAAGTAATTATATACAACTTGTGGCTTAATGATGAAGGAATCTATGAGCTGAGTTTTGACGACGATGATGTG
tattaac putative branch site (score: 1)
tttatttccattcttc putative PPT
ttgtttattcattcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtttcctttaaaaaactctggttccgagtgttatattaacgtggcttgtttattcattcatttatttccattcttcatctaccagTTCGAGGATATTGGAACACATGGAACAAAAGTAATTATATACAACTTGTGGCTTAATGATGAAGGAATCTATGAGCTGAGTTTTGACGACGATGATGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA