Sequence
atgc intronic sequence ATGC exonic sequencegtaccctcttctttctcagcagttagtccccattaaccatataaagaccaatcactgaaactattccaaaatcagaaaatgttgttgctgagtaatgatcattagaaacttgtatgtcttgcctttgtgaatcctagGGAACGGTTGAAGAGAGAATGGAGGCGGTTCAGGCGAGGAAGCAGAGAATGATCTCTGGGGCTTTAACCGATCAAGAAGTACGAAGTGCACGTATAGAGG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22750.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22750.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: LOC_Os02g32570.2 (Oryza sativa), 3'ss of exon 12
--------------------------------------gtaccctcttctttctcagcagttagtcccca---ttaaccatataaagaccaatcactgaaactattccaaaatcagaaaatgttgttgctgagtaatgatcattagaaacttgtatgtcttgcctttgtgaatcctagGGAACGGTTGAAGAGAGAATGGAGGCGGTTCAGGCGAGGAAGCAGAGAATGATCTCTGGGGCTTTAACCGATCAAGAAGTACGAAGTGCACGTATAGAGG
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gtactttgtaggtgccatttgttaaatttagtcttctgataactcgcagaacctgtgccatttgctcaaggacttgagaagatggaaatagcttaactaatacacactgaatctggtcaacataat-gcaaaatcttcattgccatactttcttaattatggtttatgatgacac-agGGCACTGTCGAGGAACGAATGGAGGCTGTGCAGGCTCGTAAGCAGCGAATGATTTCTGGAGCTTTGACAGATCAGGAAGTACGCAGCGCACGTATAGAAG
upper sequence: AT5G22750.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GRMZM2G057504_T01 (Zea mays), 3'ss of exon 8
gtaccctcttctttctcagcagttagtccccatt--aaccatataaagaccaatcactgaaactattccaaaatcaga-------aaatgttgttgctgag---taatgatcattagaaacttgtat--gtcttgcctttgtgaatc---ctagGGAACGGTTGAAGAGAGAATGGAGGCGGTTCAGGCGAGGAAGCAGAGAATGATCTCTGGGGCTTTAACCGATCAAGAAGTACGAAGTGCACGTATAGAGG
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gtatcttttttttgcatcaaatctcatcataatccagattttgctggggcca-ttatcagaagaatatacgaggcagacccttcgacattctgatgccccgattctcttgttattttttttttgtattggtcatgatataatatggccgtccagGGCACTGTCGAAGAACGAATGGAGGCTGTGCAGGCTCGAAAGCAGCGAATGATTTCTGGAGCTTTGACTGACCAAGAAGTCCGCACTGCACGTATAGAAG
upper sequence: AT5G22750.1 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: Vv06s0061g01190.t01 (Vitis vinifera), 3'ss of exon 19
gtaccctcttctttctcagcagttagtccccattaaccat-ataaagaccaatcactgaaactattccaaaatcagaaaatgttgtt--gctgagtaatgatcattagaaacttgtatgtcttgcctttgtgaatcctagGGAACGGTTGAAGAGAGAATGGAGGCGGTTCAGGCGAGGAAGCAGAGAATGATCTCTGGGGCTTTAACCGATCAAGAAGTACGAAGTGCACGTATAGAGG
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--------------------------------ataacaattacacaggcatatggctaa-----ttatgacatttggacatttctctaagatgagtagaactttgcaacaaccta---gtaaaaatatcttggatggcagGGAACGGTGGAGGAAAGGATGCTGGCAGTGCAAGCTCGTAAGCAGCGAATGATATCTGGTGCCTTGACTGATCAAGAAGTCCGAAGTGCACGCATTGAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgctgagtaatgatcattagaaacttgtatgtcttgcctttgtgaatcctagGGAACGGTTGAAGAGAGAATGGAGGCGGTTCAGGCGAGGAAGCAGAGAATGATCTCTGGGGCTTTAACCGATCAAGAAGTACGAAGTGCACGTATAGAGG
cctttgt CT-rich tract
attagaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccctcttctttctcagcagttagtccccattaaccatataaagaccaatcactgaaactattccaaaatcagaaaatgttgttgctgagtaatgatcattagaaacttgtatgtcttgcctttgtgaatcctagGGAACGGTTGAAGAGAGAATGGAGGCGGTTCAGGCGAGGAAGCAGAGAATGATCTCTGGGGCTTTAACCGATCAAGAAGTACGAAGTGCACGTATAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT