Sequence
atgc intronic sequence ATGC exonic sequencegtatcatatatgcctcttttgctgtcttgtttgaatgtttgccatcacattatgagggttgtttaatattgtaaacccttacagCATGCTCTCTATAATGGTGAAAGCAAAGAACCTGATGAATGGTGATTGCACAAAAAGCAAGCTTTGGCTTGTAGATTTAGCTGGAAGTGAGAGATTGGCA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G22610.2 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G22610.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: LOC_Os03g02290.2 (Oryza sativa), 3'ss of exon 3
-gtatcatatatgcctcttttgctgtcttgtttgaatgtttgccatcacattatgagggttgtttaatattgtaaaccctta---cagCATGCTCTCTATAATGGTGAAAGCAAAGAACCTGATGAATGGTGATTGCACAAAAAGCAAGCTTTGGCTTGTAGATTTAGCTGGAAGTGAGAGATTGGCA
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gttggtcaaaattttattattattcttttcttttctagagtacttgcttctggtcaaaatgttttgacctt-tatatctgtacctcagTATGCTTTGCATCATGGTGAGAGCGGAGAACCTGATGAATGGAGAATGTACAAGAAGTAAGCTTTGGCTTGTAGATTTGGCTGGAAGTGAACGATTAGCT
upper sequence: AT2G22610.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM2G092232_T01 (Zea mays), 3'ss of exon 9
-----------gtatcatata-tgcctcttttgctgtcttgtttgaatgtttgccatcacattatgagggttgtttaa----tattgtaaaccct-tacagCATGCTCTCTATAATGGTGAAAGCAAAGAACCTGATGAATGGTGATTGCACAAAAAGCAAGCTTTGGCTTGTAGATTTAGCTGGAAGTGAGAGATTGGCA
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gttggacactgttttcatataatatccttttttattcgttggctgattgcttgatgtccaaatg-gttcttcttttaatctttattataacttttcttcagCATGCTATGCATCACGGTGAGGGCTAAGAACCAGCTTAATGGAGAGTGTACAAGTAGTAAGCTTTGGCTTGTAGATTTGGCTGGAAGTGAGCGTTTAGCC
upper sequence: AT2G22610.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv18s0001g07800.t01 (Vitis vinifera), 3'ss of exon 9
-------------gtatcatatatgcctcttttgctgtcttgtttg----aatgtttgccatcacattatgagggttgtttaatattgtaaacccttacagCATGCTCTCTATAATGGTGAAAGCAAAGAACCTGATGAATGGTGATTGCACAAAAAGCAAGCTTTGGCTTGTAGATTTAGCTGGAAGTGAGAGATTGGCA
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cttcttttatggcttaataattattttgtttttgttggcgtgctttgcacaatgatttatcagaaaatatgacaaatggc-gttgatttttccttctccagTATGCTCTGCATAATGGTAAGAGCAAAGAATTTGATGAATGGTGAGTGCACAAATAGCAAGCTATGGCTGGTGGATTTGGCAGGCAGTGAGAGGCTAGCT
upper sequence: AT2G22610.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv00s0218g00050.t01 (Vitis vinifera), 3'ss of exon 11
gtatcatatatgcct----cttttgctgtcttgtttgaatgtttgccatcacattatgagggttgtttaatattgta--aaccct-tacagCATGCTCTCTATAATGGTGAAAGCAAAGAACCTGATGAATGGTGATTGCACAAAAAGCAAGCTTTGGCTTGTAGATTTAGCTGGAAGTGAGAGATTGGCA
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gtattcaacttcccaaaagctttctcttttctgtttccttattcatcatattttgataagttgtgaataaaatttcaccaattttgttcagCATGCTTTGTATAATGGTAAAAGCAAAAAACTTAATGAATGGCGACTGTACAAAGAGCAAGCTTTGGCTTGTGGATTTGGCTGGCAGTGAAAGGCTTGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgaatgtttgccatcacattatgagggttgtttaatattgtaaacccttacagCATGCTCTCTATAATGGTGAAAGCAAAGAACCTGATGAATGGTGATTGCACAAAAAGCAAGCTTTGGCTTGTAGATTTAGCTGGAAGTGAGAGATTGGCA
gtttaat putative branch site (score: 4)
cccttac putative PPT
ttgtttaatattgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcatatatgcctcttttgctgtcttgtttgaatgtttgccatcacattatgagggttgtttaatattgtaaacccttacagCATGCTCTCTATAATGGTGAAAGCAAAGAACCTGATGAATGGTGATTGCACAAAAAGCAAGCTTTGGCTTGTAGATTTAGCTGGAAGTGAGAGATTGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG