Sequence
atgc intronic sequence ATGC exonic sequencegttggtgtttacctactgtccgaatgtcttctgactcttgaggtgtataatattttgttgcgaggaaatcgatttctcatattttcatcttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATGACATATGAAGAGGTAAAGAAGAACATGCCAGAAGAATACGA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G07110.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: LOC_Os05g07130.2 (Oryza sativa), 3'ss of exon 18
gttggtgtttacctactgtccgaatgtcttctgactcttgaggtgtataatattttgttgcgaggaaatcgatttctcatattttcatcttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATGACATATGAAGAGGTAAAGAAGAACATGCCAGAAGAATACGA
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----gtaatcaggaaagttttggagtatttcttacataactcttgcaaggtagttatttatatgggcgttgcttaacaat-tgttgtttgcagATACAATGGCGTGCTCTTGATGAGATAAACTCTGGGGTGTGTGATGGGATGACGTATGAAGAGATAAAGAAAGTTATGCCCGAGGAATTTGA
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GRMZM2G021846_T01 (Zea mays), 3'ss of exon 18
gttggtgtttacctactgtccgaatgtcttctgactcttgaggtgtataatattttgttgcgaggaaatcgatttctcatattttcatcttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATGACATATGAAGAGGTAAAGAAGAACATGCCAGAAGAATACGA
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gtatttggttac--acgatttaggagtcttcttaaa---gaactgt-tgctatgtaagtacagcaagattg-ctcgacttgtgttatttgtagATACAATGGCGTGCTCTTGATGAGATCAATTCTGGAGTGTGTGATGGGATGACTTATGAAGAGATAAAGAAAATCATGCCCGAGGAATTTGA
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GRMZM5G824405_T02 (Zea mays), 3'ss of exon 16
gttggtgtttacctactgtccga-atgtcttctga-----ctcttgaggtgtataatattttgttgcgaggaaatcgatttctcatattttcatcttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATGACATATGAAGAGGTAAAGAAGAACATGCCAGAAGAATACGA
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gttagctatcataggtgataaaataggcctagcaagactgctctctacttatagaa-gtgttaccaaaactaacttgtttctcctcatgttcttct-agATACAATGGCGTGCTCTTGATGAGATCAATGCTGGGGTCTGTGATGGGATGACATACGATGAAATAAAGAAAAGTAAACCTGAAGAATATGA
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA02G39390.1 (Glycine max), 3'ss of exon 18
gttggtgtttacctactgtccg--aatgtcttctgactcttgaggtgtataatattttgttgcgaggaaatcgatttctcatattttcatcttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATGACATATGAAGAGGTAAAGAAGAACATGCCAGAAGAATACGA
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gttagtgtcatccttaattcaggaaatatggattgact---aaagtatacgttatt--agtgctcctgcacttactatctatat----atgttagATACAATGGCGCGCACTTGATGAGATAAATGCTGGTGTGTGTGATGGGATGACGTATGAAGAAATCAAGAAGAACATGCCAGAGGAGTATGA
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA14G37520.1 (Glycine max), 3'ss of exon 29
gttggtgtttacctactgtccg--aatgtcttctgactcttgaggtgtataatattttgttgcgaggaaatcgatttctcatattttcatcttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATGACATATGAAGAGGTAAAGAAGAACATGCCAGAAGAATACGA
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gttagtgccatccttaagtcaggaaatatggattgaca---aaagtatacattatt--------agtgctcctgcacttactatctatatgttagATACAATGGCGCGCACTTGATGAGATAAATGCCGGTGTGTGTGATGGGAAGACATATGAAGAAATCAAGAAGAACATGCCAGAGGAGTACGA
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 18
----gttggtgtttacctactgtc--cgaatgtcttctgactcttgaggtgtata-atattttgttgcgaggaaatcgatttctcatattttcatcttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATGACATATGAAGAGGTAAAGAAGAACATGCCAGAAGAATACGA
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tagcttttgaatttagaaaaatttggtggataaccaacaaatctaggaatttgtgtggaaatgagtatagaaaattctataacttttttacttttggtagATACAATGGCGTGCACTTGATGAGATAAATGCTGGAGTGTGTGATGGAATGACATATGAAGAGATAAAGAAGAACATGCCTGAGGAATACGA
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: PP1S242_66V6.1 (Physcomitrella patens), 3'ss of exon 19
-------------------------------------------------------------------------------gttggtgtt-tacctactgtcc----gaatgtcttctgactcttgaggtgtataatattttgtt---gcgaggaaat-cgat-ttctcatatt--------ttcatc-ttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATGACATATGAAGAGGTAAAGAAGAACATGCCAGAAGAATACGA
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gtacgtttacagtactgtatcccgcaaagaaatctccttcgtatgctatgtgaaatcttctgtgcagtatagctctaatattcgcgttgtatccagtgcacctggaaacacattcacaacgttgagctaactatcttcgcattaaagtgatacaatatgatattcatgtattaacaagtattcattattagGTGCAATGGCGAGCATTGGATGAGATCAATTCTGGTGTTTGTGATGGTATGACATATCTAGAAGTCAAAGAAACCATGCCTGAAGACTACTTMapped 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|125262711|gb|EL276796.1|EL276796EST: CAAGTTCCATTGTCGGATTCCCCAAG GTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATG
genomic: CAAGTTCCATTGTCGGATTCCCCAAGgttggtgttt ... ttcatcttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATG
EST:
gi|116416224|gb|EG458816.1|EG458816EST: CACTTCAGAGAACAAACCTAACAGCAAGTTCCATTGTCGGATTCCCCAAG GTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATG
genomic: CACTTCAGAGAACAAACCTAACAGCAAGTTCCATTGTCGGATTCCCCAAGgttggtgttt ... ttcatcttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaggtgtataatattttgttgcgaggaaatcgatttctcatattttcatcttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATGACATATGAAGAGGTAAAGAAGAACATGCCAGAAGAATACGA
tttctcatattttc CT-rich tract
tgtataatattttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtgtttacctactgtccgaatgtcttctgactcttgaggtgtataatattttgttgcgaggaaatcgatttctcatattttcatcttagGTGCAATGGCGTGCCCTGGACGAGATCAATGCTGGAGTTTGTGATGGGATGACATATGAAGAGGTAAAGAAGAACATGCCAGAAGAATACGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC