Sequence
atgc intronic sequence ATGC exonic sequencegtgagtcttagcgacattcttctgcaatattatctcttgaataaaacaacagctctaacagcttcctctttgattccagATCAACCAGAAGATGATGAAATCTGCTGTCATGAAAGATCTGTACTCTGAGATTGACAGACTGAAGCAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G45850.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G45850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os05g02670.2 (Oryza sativa), 3'ss of exon 8
gtga--gtcttagcga--cattcttctgcaatattatctcttg-aataaaacaacagc--tctaacagcttcctctt-----tgat-tccagATCAACCAGAAGATGATGAAATCTGCTGTCATGAAAGATCTGTACTCTGAGATTGACAGACTGAAGCAAG
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gttattgcctaagcaagttatatttatatctgactatttagtacagtaaatttgtggtagcctaacttgctcttcttactgccaatattcagGTGAACCAAAGGATGATGAAATCTGCTGTGATCAAGGACCTGTACTCTGAAATTGACCGTCTTAAGCAAG
upper sequence: AT3G45850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA11G15520.2 (Glycine max), 3'ss of exon 6
---------------------------gtgagtcttagcgacattcttctgcaatattatctcttgaataaaacaacagctctaacagcttcctctttgattcc-----agATCAACCAGAAGATGATGAAATCTGCTGTCATGAAAGATCTGTACTCTGAGATTGACAGACTGAAGCAAG
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gtgactttcatagttcctactttttttgtcaaccttaccatgctttttttttcttatcacagatttg-cagtgcaacatatctaatagtttggagttcaatactttgttagATCAATCAGAAGATGGTGAAATCTGCACTCATAAAGGATCTGTATTCTGAAATTGACAGACTGAAGCAAG
upper sequence: AT3G45850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA12G07910.1 (Glycine max), 3'ss of exon 6
---------------------------gtgagtcttagcgacattcttctgcaatattatctcttgaataaaacaacagctctaacagcttcctctttgattc-----cagATCAACCAGAAGATGATGAAATCTGCTGTCATGAAAGATCTGTACTCTGAGATTGACAGACTGAAGCAAG
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gtgactctcatagttcctactttttttgtcaaccttaccatgctttttttcttatcacagatccgcaatg---caacatatctaatagtttggagttcaatactttgttagATCAATCAAAAGATGGTGAAATCTGCACTCATTAAGGATCTGTATTCTGAAATTGAAAGACTGAAGCAAG
upper sequence: AT3G45850.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G40580.1 (Glycine max), 3'ss of exon 7
gtgagtct--tagcgacattcttc----tg--caa--tattatctcttgaataaaacaacagc-----tctaacagctt-----cctctttgattccagATCAACCAGAAGATGATGAAATCTGCTGTCATGAAAGATCTGTACTCTGAGATTGACAGACTGAAGCAAG
|||| | | ||| | | ||| || ||| | || ||| || | || ||| |||||||| || | | || ||||| || ||||| |||||||||||||| | || || ||| |||| ||||| ||||||||||| |||||||
gtgacttttttagttgcccttttcattttgatcaaccttttgctccttttatcaggcagcagagcatatctaacagtttaaagttggttattttttcagATTAATCAGAAAATGATGAAATCTGCAATGATTAAGGATTTGTATTCTGAAATTGACAGACTAAAGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatattatctcttgaataaaacaacagctctaacagcttcctctttgattccagATCAACCAGAAGATGATGAAATCTGCTGTCATGAAAGATCTGTACTCTGAGATTGACAGACTGAAGCAAG
cttcctctttgattcc CT-rich tract
ttgaataaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtcttagcgacattcttctgcaatattatctcttgaataaaacaacagctctaacagcttcctctttgattccagATCAACCAGAAGATGATGAAATCTGCTGTCATGAAAGATCTGTACTCTGAGATTGACAGACTGAAGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG