Sequence
atgc intronic sequence ATGC exonic sequencegtaagtacaccatcatctatcagtcccttgtttctatagaaaggaacaaatcttgatgtgttttttttgtttttgatttgatatagATGATACTGGGATTCTCTGGGGAATAAAGTTCTACAATGATCTGTTGATGCAAGCTGGGCCATTTGGTAATGTACAATCTGAGCTACTTTTCCAGAAAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G02210.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G02210.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G35400.1 (Glycine max), 3'ss of exon 5
---gtaagtacaccatcatctatcagtcccttgtttctatagaaaggaacaaatcttgatgtg---------ttttttttgtttt---tgatttgatatagATGATACTGGGATTCTCTGGGGAATAAAGTTCTACAATGATCTGTTGATGCAAGCTGGGCCATTTGGTAATGTACAATCTGAGCTACTTTTCCAGAAAGA
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gtcataataactgcatgagcaa-cacattcttattttcgcaatagaacatgtattttgtggagacaccaaaatgattattgatctaagttacttttaatagATGATACAGCAATGCTTTGGGGACTTAAGTTCTACAATGATTTTCTCATGCAAGCTGGCCCTCTTGGTAATGTACAATCAGAGCTACTATTCAGAAAGGA
upper sequence: AT3G02210.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G06660.1 (Glycine max), 3'ss of exon 5
---gtaagtacaccatcatctatcagtcccttgtttctatagaaaggaacaaatctt---gatgtgttttttttgtttttgatttgat---------atagATGATACTGGGATTCTCTGGGGAATAAAGTTCTACAATGATCTGTTGATGCAAGCTGGGCCATTTGGTAATGTACAATCTGAGCTACTTTTCCAGAAAGA
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gtcataataactgcatgagcaa-catattcttattttcgcaatagaacatgtattttgtggaggcaccaaaatgattattgatctaagttacttttaatagATGATACAGCAATGCTTTGGGGACTTAAGTTCTACAATGATTTTCTCATGCAAGCTGGCCCTCTTGGTAATGTACAATCAGAGCTACTATTCAGAAAGGA
upper sequence: AT3G02210.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA19G04210.1 (Glycine max), 3'ss of exon 6
gtaagtacaccatcatctatcagtcccttgtttctatagaaaggaacaaatctt------gatgtgttttttttgtttttgatttgat---------atagATGATACTGGGATTCTCTGGGGAATAAAGTTCTACAATGATCTGTTGATGCAAGCTGGGCCATTTGGTAATGTACAATCTGAGCTACTTTTCCAGAAAGA
| || || | | | || ||| ||| | || |||| | || || | | | || ||||| | | | ||||||||| | || || |||||| | ||||||||||||||| | | ||||||||||| || |||||||||||||||| || ||||| ||| || ||
tcataaactgtatgagcaa-catattcttattttcaccataaataacatgtatttttgtagaggcgccaaaatgattattgatctaagttacttttaacagATGATACAGCAATGCTTTGGGGAGTTAAGTTCTACAATGATTTTCTCATGCAAGCTGGCCCTCTTGGTAATGTACAATCAGAACTACTATTCAGAAAGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctatagaaaggaacaaatcttgatgtgttttttttgtttttgatttgatatagATGATACTGGGATTCTCTGGGGAATAAAGTTCTACAATGATCTGTTGATGCAAGCTGGGCCATTTGGTAATGTACAATCTGAGCTACTTTTCCAGAAAGA
tgttttttttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtacaccatcatctatcagtcccttgtttctatagaaaggaacaaatcttgatgtgttttttttgtttttgatttgatatagATGATACTGGGATTCTCTGGGGAATAAAGTTCTACAATGATCTGTTGATGCAAGCTGGGCCATTTGGTAATGTACAATCTGAGCTACTTTTCCAGAAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG