Sequence
atgc intronic sequence ATGC exonic sequence...attgttgataaccttttagtaattgtggtatgcatggttatccatacatcatcttaattgatatgactgttcttcctttctttgtctaccttcaaatcagCATGCTCAAAACACTTGAAAGGTACCAGAAATGCAGCTATGGTGCTGTGGAAGTTAGCAAACCTGCCAAAGAGCTCGAG
Basic information
species | Glycine max |
transcript | GLYMA18G50900.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G50900.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G02310.1 (Arabidopsis thaliana), 3'ss of exon 1
--attgttgataaccttttagtaattgtggtatgcatggttatccatacatcatcttaattgatatgactgttcttcctttctttgtctaccttcaaatcagCATGCTCAAAACACTTGAAAGGTACCAGAAATGCAGCTATGGTGCTGTGGAAGTTAGCAA---ACCTGCCAAAGAGCTCGAG
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ttctttttataaattttcttttgttagtttttaaaattttagtttgttcattaaatttatagattc--ttcttctcctgatttgtgttttttgatctttcagCATGCTCAAGACACTGGAAAGGTATCAGAAGTGTAGCTATGGCTCCATTGAAGTCAACAACAAACCTGCTAAAGAGCTTGAG
upper sequence: GLYMA18G50900.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G15800.1 (Arabidopsis thaliana), 3'ss of exon 1
attgttgataaccttttagtaattgtggtatgcatggtta----tccatacatcatcttaattgatatgactg-ttcttcctttctttgtctaccttcaaatcagCATGCTCAAAACACTTGAAAGGTACCAGAAATGCAGCTATGGTGCTGTGGAAGTTAGCAA---ACCTGCCAAAGAGCTCGAG
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-----gaagagctttttttttatggtgatttataggtttagatctccaaagtcaagtatgatctttttaataaactcttattctctctttttgagttattttcagCATGCTCAAGACACTTGATCGGTACCAGAAATGCAGCTATGGATCCATTGAAGTCAACAACAAACCTGCCAAAGAACTTGAG
upper sequence: GLYMA18G50900.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0083g01050.t01 (Vitis vinifera), 3'ss of exon 1
-attgttgataaccttttagtaattgtggtatgcatggttatccatacatcatcttaattgatatgactgttcttcctttctttgtctacct-tcaaatcagCATGCTCAAAACACTTGAAAGGTACCAGAAATGCAGCTATGGTGCTGTGGAAGTTAGCAAACCTGCCAAAGAGCTCGAG
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ccaggtttcaatttttttagtacaagtttcattattttatgttcatgttcggttcta--taatgggatctcttttttttcctttgccttcatcttatgttagCATGCTCAAGACACTCGAAAGATACCAAAAATGCAGTTATGGTGCAGTGGAAGTCAGCCGACCCTCCAAGGAGCTTGAGMapped 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|193540805|gb|FK493895.1|FK493895EST: ATCATCTTCTCCAACCGAGGCAAGCTTTATGAGTTCTGTAGCAGCTCTAG CATGCTCAAAAC
genomic: ATCATCTTCTCCAACCGAGGCAAGCTTTATGAGTTCTGTAGCAGCTCTAGgtatgcagtg ... ttcaaatcagCATGCTCAAAAC
EST:
gi|8401582|gb|BE057146.1|BE057146EST: ATCATCTTCTCCAACCGAGGCAAGCTTTATGAGTTCTGTAGCAGCTCTAG CATGCTCAAAACACTTGAAAGGTACCAGAAATGCAGCTATGGTGCTGTGGA
genomic: ATCATCTTCTCCAACCGAGGCAAGCTTTATGAGTTCTGTAGCAGCTCTAGgtatgcagtg ... ttcaaatcagCATGCTCAAAACACTTGAAAGGTACCAGAAATGCAGCTATGGTGCTGTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatcatcttaattgatatgactgttcttcctttctttgtctaccttcaaatcagCATGCTCAAAACACTTGAAAGGTACCAGAAATGCAGCTATGGTGCTGTGGAAGTTAGCAAACCTGCCAAAGAGCTCGAG
ctgttcttcctttctt CT-rich tract
atcttaattgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attgttgataaccttttagtaattgtggtatgcatggttatccatacatcatcttaattgatatgactgttcttcctttctttgtctaccttcaaatcagCATGCTCAAAACACTTGAAAGGTACCAGAAATGCAGCTATGGTGCTGTGGAAGTTAGCAAACCTGCCAAAGAGCTCGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- tgttgat
- - - - - - - - - - - - - -gtatgca
- - - - - - - - - - - - - - - - - - - - -ccataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatatg