Sequence
atgc intronic sequence ATGC exonic sequencegtgagactaagtctattgtttttggtcacatttgttacgccttctcttgatatcgtcaatcttatggcaattagatatgattttacaagggaaagaacatatgtttgaaatgattggtattctttgggcagCACCATATTGGTTATGACATCGCTGGTTGCTCTATCGTTCTATGGTGCAAGCCAGCTCAAGTTTCACTGGGTGGAGCGGTACGACAAACTACTGGTTGGT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G21070.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G21070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G078895_T02 (Zea mays), 3'ss of exon 2
gtgagactaagtctattgtttttggtcacatttgttacgccttctcttgatatcgtcaatcttatggcaattagatatgattttacaagggaaagaacatatgtttga---aatgattggtattctttgggcagCACCATATTGGTTATGACATCGCTGGTTGCTCTATCGTTCTATGGTGCAAGCCAGCTCAAGTTTCACTGGGTGGAGCGGTACGACAAACTACTGGTTGGT
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----------------------------------aggtgttttattttaaatgtgatagttgtatcaagttcgaaaaagatgcttcttacagctattcttcttttcgattcatcagtttcgtttcttcctgcagCACCATCACAGTGATGACATCCTTGGTGGCCCTTTCATTCTACGGTGCTAGCCAGATCAAGTTCCACTGGGTGGAGCGTTACGACAAGATCCTCGTCGGC
upper sequence: AT5G21070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA02G44180.1 (Glycine max), 3'ss of exon 2
gtgagactaagtctattgtttttggtcacatttgttacgccttctcttgatatcg-tcaatcttatggcaattagatatgattttacaagggaaagaacatatgtttgaaatgattggtattctttgggcagCACCATATTGGTTATGACATCGCTGGTTGCTCTATCGTTCTATGGTGCAAGCCAGCTCAAGTTTCACTGGGTGGAGCGGTACGACAAACTACTGGTTGGT
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-------------------------tcattgatgctac-tttggtttagatgccaattaagtttgcaaaaaa-aaataaaaattgatattgattactaaccaagcttcacacatattgcattt-----acagCACAATAACTGTGATGACTTCGCTAGTAGCATTGTCATTTTATGGGGCCAGTCAGCTGAAGTTTCACTGGGTGGAGCGATATGACAAACTTCTTGTTGGT
upper sequence: AT5G21070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA14G04600.1 (Glycine max), 3'ss of exon 2
gtgagactaagtctattgtttttggtcacatttgttacgccttctcttgatatcgtcaatcttatg-gcaattagatatgattttacaagggaaagaacatatgtttgaaatgattggtattctttgggcagCACCATATTGGTTATGACATCGCTGGTTGCTCTATCGTTCTATGGTGCAAGCCAGCTCAAGTTTCACTGGGTGGAGCGGTACGACAAACTACTGGTTGGT
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-------------------------tctgggttgatgctactctggtttagat-gccaattaagtttgcaaataaaaattgttt------agatattcattactaaccaagcttcacacattgcatttacagCACAATAACTGTGATGACTTCGCTAGTAGCGTTGTCATTTTATGGGGCCAGTCAACTGAAGTTTCACTGGGTGGAGCGGTATGACAAGCTTCTTGTTGGT
upper sequence: AT5G21070.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv06s0009g01580.t01 (Vitis vinifera), 3'ss of exon 2
gtgagactaagtctattgtttttggtcacatttgttacgccttctcttgatatcgtcaatcttatggcaattagatatgattttacaagggaaagaacatatgtttgaaatgattggtattctttgggcagCACCATATTGGTTATGACATCGCTGGTTGCTCTATCGTTCTATGGTGCAAGCCAGCTCAAGTTTCACTGGGTGGAGCGGTACGACAAACTACTGGTTGGT
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----------------------tggggccatt-gccatatgtggatatactataag-aagcttgtggt--ttgagtttgcttcctttgctgtataacttgacattgagtaatgttgg-atttt----gcagCACCATTACTGTGATGACCTCACTGGTGGCTCTCTCATTCTACGGTGCCAGCCAGCTCAAGTTTCACTGGGTGGAGCGGTACGACAAGCTTCTTGTGGGTMapped 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|124836142|gb|EH920581.1|EH920581EST: TGGTTCTCGCCATCATAGTTCTGCTCTTCAG CACCATATTGGTTATGACATCGCTGGTTGCTCTATCGTTCTATGGTGCAAG
genomic: TGGTTCTCGCCATCATAGTTCTGCTCTTCAGgtgagactaa ... ctttgggcagCACCATATTGGTTATGACATCGCTGGTTGCTCTATCGTTCTATGGTGCAAG
EST:
gi|164137613|gb|EL982220.1|EL982220EST: GAAATTCCCAAGTCCATGATGGTTCTCGCCATCATAGTTCTGCTCTTCAG CACCATATTGGTTATGACATCGCTGGTTGCTCTATC
genomic: GAAATT-CCAAGTCCATGATGGTTCTCGCCATCATAGTTCTGCTCTTCAGgtgagactaa ... ctttgggcagCACCATATTGGTTATGACATCGCTGGTTGCTCTATC
EST:
gi|86074831|gb|DR370588.1|DR370588EST: GGAAATTCCAAGTCCATGATGGTTCTCGCCATCATAGTTCTGCTCTTCAG CACCATATTGGTTATGACATCGCTGGTTGCTCTATCGTTCTATGGTGCAAG
genomic: GGAAATTCCAAGTCCATGATGGTTCTCGCCATCATAGTTCTGCTCTTCAGgtgagactaa ... ctttgggcagCACCATATTGGTTATGACATCGCTGGTTGCTCTATCGTTCTATGGTGCAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgattttacaagggaaagaacatatgtttgaaatgattggtattctttgggcagCACCATATTGGTTATGACATCGCTGGTTGCTCTATCGTTCTATGGTGCAAGCCAGCTCAAGTTTCACTGGGTGGAGCGGTACGACAAACTACTGGTTGGT
tattcttt CT-rich tract
atatgttt 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
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gtgagactaagtctattgtttttggtcacatttgttacgccttctcttgatatcgtcaatcttatggcaattagatatgattttacaagggaaagaacatatgtttgaaatgattggtattctttgggcagCACCATATTGGTTATGACATCGCTGGTTGCTCTATCGTTCTATGGTGCAAGCCAGCTCAAGTTTCACTGGGTGGAGCGGTACGACAAACTACTGGTTGGT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG