Sequence
atgc intronic sequence ATGC exonic sequencegtatatgatcatttggactttggtgtatccactatcaaaaccaacaaaagatatagtgcatgagctgaaattttcttttattgaatctttagGCAGCAAATAACTGTGAGTTAGAAACAGTTGCTTATGAGTTCTTCACAAAGGCATATCTTCTGTATGAAGAAGAAATTTCA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G51310.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G51310.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GRMZM5G825524_T01 (Zea mays), 3'ss of exon 17
gtatatgatcatttggactttggtgtatccactatcaaaaccaacaaaagatatagtgcatgagctgaaattttcttttattgaatctttagGCAGCAAATAACTGTGAGTTAGAAACAGTTGCTTATGAGTTCTTCACAAAGGCATATCTTCTGTATGAAGAAGAAATTTCA
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--------------------gtatgcttgtaatactgcatatttttgtaagtcttcctcttattatctgattatgtttc-ttga---tttagGCTGCCAATGACTGTGATTTGGAACCAGTTGCTTATGAGTTCTTTACTCAAGCGTTCATATTATATGAAGAAGAAATTGCG
upper sequence: AT3G51310.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GRMZM5G844195_T02 (Zea mays), 3'ss of exon 18
gtatatgatcatttggactttggtgtatccactatcaaaaccaacaaaagatatagtgcatgagctgaaattttc-ttttattgaatctttagGCAGCAAATAACTGTGAGTTAGAAACAGTTGCTTATGAGTTCTTCACAAAGGCATATCTTCTGTATGAAGAAGAAATTTCA
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----------------------gtatgtttgtgat----actgcgtattttcataattcttcatcttactctctgattatgtttttaatttagGCTGCCAATGACTGTGATTTGGAACCAGTTGCTTATGAGTTCTTTACTCAAGCGTTCATTTTATATGAAGAAGAAATCACG
upper sequence: AT3G51310.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA01G36870.1 (Glycine max), 3'ss of exon 16
gtatatgatcatttggactttggtgtatccactatcaaaaccaacaaaagatatagtgcatgagctgaaattttcttttattgaatctttagGCAGCAAATAACTGTGAGTTAGAAACAGTTGCTTATGAGTTCTTCACAAAGGCATATCTTCTGTATGAAGAAGAAATTTCA
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gtactggaatatatttggtt-atcacatcaa--aatgatatttcctaactatttgctgattttgttg----tttcttttcttgcat--taagGCTGCAAATGACTGTGAATTGGAACCTGTTGCTTATGAATTTTTCACCCAAGCTTATATTCTATATGAAGAAGAAATTTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaccaacaaaagatatagtgcatgagctgaaattttcttttattgaatctttagGCAGCAAATAACTGTGAGTTAGAAACAGTTGCTTATGAGTTCTTCACAAAGGCATATCTTCTGTATGAAGAAGAAATTTCA
tcttt CT-rich tract
aaattttcttttattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatgatcatttggactttggtgtatccactatcaaaaccaacaaaagatatagtgcatgagctgaaattttcttttattgaatctttagGCAGCAAATAACTGTGAGTTAGAAACAGTTGCTTATGAGTTCTTCACAAAGGCATATCTTCTGTATGAAGAAGAAATTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA