Sequence
atgc intronic sequence ATGC exonic sequencegtaattgtcattccttgaaatgtatgctcaattgctctttatacccatgttccagtcattatatttttcgtttgttgttttcctgtagGTCTTGGGTGGAACTATCCTTGTGATCTTTGGAGTGTGGGCTGCATACTGGTTGAGCTTTGCTCT
Basic information
species | Glycine max |
transcript | GLYMA03G33100.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G33100.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G386991_T01 (Zea mays), 3'ss of exon 8
------------------------------------gtaattgtcattc--cttgaaatgtatgctcaattgc-----tctttatacccatgttccagtcattatatttttcgt---ttgttgttttcctgtagGTCTTGGGTGGAACTATCCTTGTGATCTTTGGAGTGTGGGCTGCATACTGGTTGAGCTTTGCTCT
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gtataattgacatccgctgacccacacacaaagtggccaatttacctttattttctatttttttcttaatgacaccagtttctttgttttgtatttgttttttaaatctttgataaatgacaattcttgtttagGTCTTGGGTGGAACTATCCATGCGACTTGTGGAGTGTGGGTTGCATTTTAGTTGAGCTTTGTTCG
upper sequence: GLYMA03G33100.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G53570.2 (Arabidopsis thaliana), 3'ss of exon 9
gtaattgtcatt--ccttgaaatgtatgctcaattgctctttatacccatgttccagtcattatatttttc-gtttgttgt-tttcctgtagGTCTTGGGTGGAACTATCCTTGTGATCTTTGGAGTGTGGGCTGCATACTGGTTGAGCTTTGCTCT
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gtaaacgtttatgactctgacacatctacgtagatgattatttt-tttgtgt---agtcatggtatttaagagtttggaacgtttattgcagGGGTTGGATGGAACTATCCATGTGATCTGTGGAGTATTGGTTGCATACTTGTTGAACTTTGTTCG
upper sequence: GLYMA03G33100.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv08s0040g02640.t01 (Vitis vinifera), 3'ss of exon 8
gtaattgtcattccttgaaatgtatgctcaattgctcttt--atacccatgttccagtcattatatttttcgtttgttgttttcctgtagGTCTTGGGTGGAACTATCCTTGTGATCTTTGGAGTGTGGGCTGCATACTGGTTGAGCTTTGCTCT
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gtaattgttaactccccattagactcggtagttggtattttgatattaatagtttag--atgatgaatattgttc--tgtttac-tgcagGCCTTGGATGGAACTACCCTTGTGATCTATGGAGTGTAGGATGCATACTTATTGAACTTTGCTCA
upper sequence: GLYMA03G33100.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S100_121V6.1 (Physcomitrella patens), 3'ss of exon 10
-----------------------------------------------------------------gtaattg-tcattcc-ttgaaatgtatgctcaattgct---------ctttatacccatgttccagtcattatat---ttttcgtttgttgttttcctgt---agGTCTTGGGTGGAACTATCCTTGTGATCTTTGGAGTGTGGGCTGCATACTGGTTGAGCTTTGCTCT
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gtgaggcgcacatcagttttttgctttgagcaactaataccagggtccacgagggtgtttaggtttcagtcaatcattccattgggatgtccttgtcatctctggaacgaggtggggaatccaggaggcagcaaaagagtggattctcataagaagtgctcttttcccagGTCTTGGTTGGACATATCCTTGCGATATTTGGAGTGTGGGCTGCATACTCGTAGAACTGTGTTCGMapped 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|192302499|gb|FG994821.1|FG994821EST: CAGTTATGTTGTTTCAACAAGACACTATCGTGCACCAGAAGTTATCTTAG GTCTTGGGTGGAACTATCCTTGTGATCTTTGGAGTGTGGGCTGCATACTGG
genomic: CAGTTATGTTGTTTCAACAAGACACTATCGTGCACCAGAAGTTATCTTAGgtaattgtca ... tttcctgtagGTCTTGGGTGGAACTATCCTTGTGATCTTTGGAGTGTGGGCTGCATACTGG
EST:
gi|192302498|gb|FG994820.1|FG994820EST: CAGTTATGTTGTTTCAACAAGACACTATCGTGCACCAGAAGTTATCTTAG GTCTTGGGTGGAACTATCCTTGTGATCTTTGGAGTGTGGGCTGCATACTGG
genomic: CAGTTATGTTGTTTCAACAAGACACTATCGTGCACCAGAAGTTATCTTAGgtaattgtca ... tttcctgtagGTCTTGGGTGGAACTATCCTTGTGATCTTTGGAGTGTGGGCTGCATACTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctctttatacccatgttccagtcattatatttttcgtttgttgttttcctgtagGTCTTGGGTGGAACTATCCTTGTGATCTTTGGAGTGTGGGCTGCATACTGGTTGAGCTTTGCTCT
tttttcgtttgttgtt CT-rich tract
attatatttttcgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattgtcattccttgaaatgtatgctcaattgctctttatacccatgttccagtcattatatttttcgtttgttgttttcctgtagGTCTTGGGTGGAACTATCCTTGTGATCTTTGGAGTGTGGGCTGCATACTGGTTGAGCTTTGCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT