Sequence
atgc intronic sequence ATGC exonic sequence...tactgcctagtgaatgtagtaagagtcacaactcagtctctttcgtgaagtttttggtttggtccattttgcatgatatggttatgttatttcctttcagTGTAAGGGCAATAGTTGCTTTGAACCTTCATAGCTATGGAAGTGGAAGAAATCCATGGGGTAAACCAAAACCAGATTATTTGGAAAAG
Basic information
species | Glycine max |
transcript | GLYMA17G07480.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G07480.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os08g15090.1 (Oryza sativa), 3'ss of exon 11
-----tactgcctagtgaatgtagtaagagtca-caactcagtctctttcgtgaagtttttggtttggtccattttgcatgatatggttatgttatttcctttcagTGTAAGGGCAATAGTTGCTTTGAACCTTCATAGCTATGGAAGTGGAAGAAATCCATGGGGTAAACCAAAACCAGATTATTTGGAAAAG
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gggcacactaagtaatgaa-gtctcacggctgaactagaaattattcttggcacaagtatagag--gatacagtttatattgagcagccatgttgtac---ttcagTGTCAGGGCTATTGTTGCATTAAACCTTCACAATTATGCAAGTGGAAGGAATCCATGGGGAAACTTGAAGCCTGAATACTTGGAAAAG
upper sequence: GLYMA17G07480.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G30340.1 (Arabidopsis thaliana), 3'ss of exon 6
tactgcctagtgaatgtagtaagagtcacaactcagtctctttcgtgaagtttttggtttggtccattttgcatgatatggttatgttatttcctttcagTGTAAGGGCAATAGTTGCTTTGAACCTTCATAGCTATGGAAGTGGAAGAAATCCATGGGGTAAACCAAAACCAGATTATTTGGAAAAG
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---------gttcatataaaactaatcttatctttgattaaaactaaaaaaat--ggcttcacttataatctc---tctggtt---ttgttttggtgtagCGTAAGATCTATTGTGGTGTTGAATCTTTATAACTATGGAAGTGGAAGACATCCATGGGGTAATCTCAGACCAAAATATTTAGAGAAG
upper sequence: GLYMA17G07480.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G57690.1 (Arabidopsis thaliana), 3'ss of exon 7
tactgcctagtgaatgtagtaagagtcacaactcagtct---ctttcgtgaagtttttggtttggtccattttgcatgatatggttatgttatttccttt--cagTGTAAGGGCAATAGTTGCTTTGAACCTTCATAGCTATGGAAGTGGAAGAAATCCATGGGGTAAACCAAAACCAGATTATTTGGAAAAG
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--gtatctacagaatagaaacaagaacacaaatgagacagaacacttttaaatctcataattgggtttctaatgaaagatgtgtgtttgcttgtttttgggacagTGTAAGAGCAGTTGTTGCATTGAATCTACATAGCTATGGAAGTGGAAGAAACCCTTGGGGAAATCTCAAACAAGATTATCTTGAAAAA
upper sequence: GLYMA17G07480.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv11s0052g01840.t01 (Vitis vinifera), 3'ss of exon 9
tactgcctagtgaatgtagtaagagtcacaactcagtctctttcgtgaagtttttggt----ttggtccattttgcatgatatggttatgttatttcctttcagTGTAAGGGCAATAGTTGCTTTGAACCTTCATAGCTATGGAAGTGGAAGAAATCCATGGGGTAAACCAAAACCAGATTATTTGGAAAAG
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--caaaatagcaacctttttttattttttatttc--tttttcttgatttattattagtatcatttattcatttcatttcacttaatgtttctttcaacttcaagTGTGAGGGCAATAGTTGCTTTGAATCTTCATAGCTATGGAAGTGGAAGACATCCATGGGGTAATCTGAAGCCAGACTATTTGGAAAAGMapped 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|254319478|gb|GR830729.1|GR830729EST: ATCAAAAGGGTCAATAGCTCAGAGTGGGAGCAGATTGCAATTCCTACAAG TGTAAGGGCAATAGTTGCTTTGAACCTTCATAGCTATGGAAGTGGAAGAAA
genomic: ATCAAAAGGGTCAATAGCTCAGAGTGGGAGCAGATTGCAATTCCTACAAGgtacatttct ... ttcctttcagTGTAAGGGCAATAGTTGCTTTGAACCTTCATAGCTATGGAAGTGGAAGAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaagtttttggtttggtccattttgcatgatatggttatgttatttcctttcagTGTAAGGGCAATAGTTGCTTTGAACCTTCATAGCTATGGAAGTGGAAGAAATCCATGGGGTAAACCAAAACCAGATTATTTGGAAAAG
tgttatttcctttc CT-rich tract
ttatgttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tactgcctagtgaatgtagtaagagtcacaactcagtctctttcgtgaagtttttggtttggtccattttgcatgatatggttatgttatttcctttcagTGTAAGGGCAATAGTTGCTTTGAACCTTCATAGCTATGGAAGTGGAAGAAATCCATGGGGTAAACCAAAACCAGATTATTTGGAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- ctgccta
- - - - - -gaatgta
- - - - - - - - - - - - - - caactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttatg