Sequence
atgc intronic sequence ATGC exonic sequenceAGAGGTCGTACGGTTGAGATCTTCAACAGTTTCGAGCTGATATTCGATCCTGCTCTTGATACTCTCGACAGATCCTTCCTCGAGAAGAAGCAAGAACTCTgtaagtttacttacactcgctcacttttgttgtcgattgtttgatactcttgctaatttgtgagttttgttattttttag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G26430.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA04G12890.1 (Glycine max), 5'ss of exon 1
AGAGGTCGTACGGTTGAGATCTTCAACAGTTTCGAGCTGATATTCGATCCTGCTCTTGATACTCTCGACAGATCCTTCCTCGAGAAGAAGCAAGAACTCTgtaagtttacttacactcgctcacttttgttgtcgattgtttgatactcttgctaatttgtgagt---tttgttattttttag-----------------
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AAGGGCCGCACCGTGGAGATCTTCAACAGCTTCGAACTCCTCTACGATCCTTCCTCCCACTCCCTCGATCGCACCTTCCTCGAGAAGAAGCAAGAACTCTgttcagtattcctttctctctcaactttttcaatttttaatttcaatttttatgcaattgtgactgcatttgacagcaatttgaaaccttgaacgacctt
upper sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA06G47850.1 (Glycine max), 5'ss of exon 1
AGAGGTCGTACGGTTGAGATCTTCAACAGTTTCGAGCTGATATTCGATCCTGCTCTTGATACTCTCGACAGATCCTTCCTCGAGAAGAAGCAAGAACTCTgt--aagtttacttacactcgctcactt--ttgttgt-cgattgt--ttgatactcttgctaattt---gtgagttttgttattttttag----------
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AAGGGTCGCACCGTTGAGATCTTCAACAGCTTCGAACTCCTCTACGATCCTTCCACCCACTCCCTCGATCGCACCTTTCTCGAGAAGAAGCAAGAACTCTgttcagtatttctttctctccctctctcaatttttatgcaattgtgactgcatttgtccttaatttcccgtaacgttaaggattgtgttgcaactgtgac
upper sequence: AT4G26430.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv19s0015g01950.t01 (Vitis vinifera), 5'ss of exon 1
AGAGGTCGTACGGTTGAGATCTTCAACAGTTTCGAGCTGATATTCGATCCTGCTCTTGATACTCTCGACAGATCCTTCCTCGAGAAGAAGCAAGAACTCTgtaagtttacttacactcgctcacttttgt-tgtcgattgtttgatactcttgct--aatttgtgagttttgttattttttag----------------------------------------------------------------------------------------------
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AGAGGACGCACTGTTGAGATCTTTAACAGTTTTGAACTTCTGTATGATCCATCTACTCATTCTCTCGACAGATCCTTCCTTGAGAAGAAGCAAGAGCTCTgttagtctttctctacctcccttcccctatatatctctcagtgtttagtcatgattcaagttagggtttttcttgttcgtttgttttgttttttttttttttttttcatgtggtttaggttttagggtttggtgaactttgaatgttacgctgagtgattctcttgatgtggattagMapped 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|116443197|gb|EG485789.1|EG485789EST: TGCTCTTGATACTCTCGACAGATCCTTCCTCGAGAAGAAGCAAGAACTCT ATAAGAAGGTGTTCCCTGACTTCTACGTATTGGGATGGTATTCTACGGGAA
genomic: TGCTCTTGATACTCTCGACAGATCCTTCCTCGAGAAGAAGCAAGAACTCTgtaagtttac ... tattttttagATAAGAAGGTGTTCCCTGACTTCTACGTATTGGGATGGTATTCTACGGGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAGGTCGTACGGTTGAGATCTTCAACAGTTTCGAGCTGATATTCGATCCTGCTCTTGATACTCTCGACAGATCCTTCCTCGAGAAGAAGCAAGAACTCTgtaagtttacttacactcgctcacttttgttgtcgattgtttgatactcttgctaatttgtgagttttgttattttttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC