Sequence
atgc intronic sequence ATGC exonic sequencegtacgtctctgtctgtttctgtaaaattaaattggcgtttcacatggctatttcatctagtcttaatcacgatatggtacttgatcggttcgactgttcatgactgttattctacttttgttgcagGTGAACAATATTAGTGGTTACCTTCCTGGGAGAATTGTATTTTTCTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G07110.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA11G27870.1 (Glycine max), 3'ss of exon 15
gtacgtctctgtctgtttctgtaaaattaaattggcgtttcacatg-gctatttcatctagtcttaatcacgatatggtacttgatcggttcgactgttcatgactgtta--ttcta-cttttgttgcagGTGAACAATATTAGTGGTTACCTTCCTGGGAGAATTGTATTTTTCTTG
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---------------------------tagagtacctgtgtgtgtgtgtccttgaattttgctctaccca---tttagtttcaagtgactttgattgctaattgttaatagcttctgtcttttggtctagGTGAACAATATCAGTGGTTACCTTCCTGGACGAATTGTCTTTTTCTTG
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 20
gtacgtctctgtctgtttctgtaaaattaaattggcgtttcacatggctatttcatctagtc--ttaatcacgatatggtacttgatcggttcgactgttcatgactgttattctacttttgttgcagGTGAACAATATTAGTGGTTACCTTCCTGGGAGAATTGTATTTTTCTTG
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-------------------tgtagagt-acctgtgtgtgtgtccttgaattttgctctacccatttagtttcaa-gtgac-tttgattgct--aactgttaatagcttctgt----cttttggtctagGTGAACAATATCAGTGGCTACCTTCCTGGACGAATTGTCTTTTTCTTG
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA18G06770.1 (Glycine max), 3'ss of exon 16
gtacgtctctgtctgtttctgtaaaattaaattggcgtttcacatggctatttcatctagtcttaatcacgatatggtacttgatcggttcgactgttcatgactgttattctacttttgttgcagGTGAACAATATTAGTGGTTACCTTCCTGGGAGAATTGTATTTTTCTTG
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--------------------gtagagt-acatgtgtgtgtccttgaattttgccctactcatttattttcaagtgtgactttgatttgtt-aattgctaataacttctgt----cttttggtctagGTGAATAATATCAGTGGTTACCTTCCTGGCCGAATTGTCTTTTTCTTG
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: PP1S215_89V6.1 (Physcomitrella patens), 3'ss of exon 15
--------------------gtacgtctctgtctgtttctgtaaaattaaattggcgtttcacatggctatttcatctagtcttaatcacgatatggtacttgatcggttcgactgttcatgactgttattctacttttg-ttgcagGTGAACAATATTAGTGGTTACCTTCCTGGGAGAATTGTATTTTTCTTG
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gtgagtaaattcagtttgccaagcaagtaattcaagtatttagaggtaccaatagcaatcgatactact-tctcatttgaggtgaag-aaagtataggaggtgatgagaaaatgagtttttgacttaattgttggctgcgcttgtagGTGAACAGCATTAGTGGTTACCTTCCTGGTCGAATTGTGTTTTTTCTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|164116556|gb|ES087977.1|ES087977EST: GTACATCAAAATGATTGATATGGTCAGTGGGAACGGTGGACAGATACAA GTGAACAATATTAGTGGTTACCTTCCTGGGAGAATTGTATTTTTC
genomic: GTACATCAAAATGATTGATATGGTCAGTGGGAACGGTGGACAGATACAAgtacgtctct ... tttgttgcagGTGAACAATATTAGTGGTTACCTTCCTGGGAGAATTGTATTTTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatggtacttgatcggttcgactgttcatgactgttattctacttttgttgcagGTGAACAATATTAGTGGTTACCTTCCTGGGAGAATTGTATTTTTCTTG
acttgat putative branch site (score: 5)
ttctactttt putative PPT
ttattcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtctctgtctgtttctgtaaaattaaattggcgtttcacatggctatttcatctagtcttaatcacgatatggtacttgatcggttcgactgttcatgactgttattctacttttgttgcagGTGAACAATATTAGTGGTTACCTTCCTGGGAGAATTGTATTTTTCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA