Sequence
atgc intronic sequence ATGC exonic sequenceATTACAAGATGGTTCGTTAATGGAGATTGCTAAAGTGTATCCTTTGGATGCAGTATATGACAATCCTGAAGATGTCCCGGAAGATgtaagagagaagtacataatagttatgaaaatacacaacgtacatttacaaaacttttcatcttctatttttttgttgaaaaattgtatag
Basic information
species | Glycine max |
transcript | GLYMA18G31780.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G079256_T01 (Zea mays), 5'ss of exon 5
ATTACAAGATGGTTCGTTAATGGAGATTGCTAAAGTGTATCCTTTGGATGCAGTATATGACAATCCTGAAGATGTCCCGGAAGATgtaa-gagagaagtacataatagttatgaaaatacacaacgtacatttacaaaacttttcatcttctatttttttgttgaaaaattgtatag
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GCTACCTGATGGATCTCTTATGGAGATTGCTAAAGTATATCCACTGGACGCAGTTTATGACACCCCTGAGGATGTTCCTGAAGATgtaatgctcatcatttatgatgtttctgttatcat------ttttctttcatgctttatgaacctttttgtccctgttgcag----------
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G05990.2 (Arabidopsis thaliana), 5'ss of exon 5
--ATTACAAGATGGTTCGT-TAATGGAGATTGCTAAAGTGTATCCTTTGGATGCAGTATATGACAATCCTGAAGATGTCCCGGAAGA-Tgtaagagagaagtacataatagttatgaaaatacacaacgtacatttacaaaacttttcatcttctatttttttgttgaaaaattgtatag
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GGTTTATGCTTTGGATGCTGTGTTTGACAATCCTGAAGATGTGCCTGAAGATGTGAAAACGAATAAGCGATATGCAGGATCGTCAAACTGGACCGTACAGgtatagattagagatacacaaacacgcctgcaagttaacatgtgttactccttaatgctttttgttgcttaaatcag---
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0004g01310.t01 (Vitis vinifera), 5'ss of exon 5
ATTACAAGATGGTTCGTTAATGGAGATTGCTAAAGTGTATCCTTTGGATGCAGTATATGACAATCCTGAAGATGTCCCGGAAGATgtaagagagaagtacataatagttatgaaaatacacaacgtacatttacaaaacttttcatcttctatttttttgttgaaaaattgtatag
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GTTGCCAGATGGTTCTTTGATGGAGATCACCAAAATATATCCTTTGGATGCAGTTTATGACACCCTTGAGGATGTACCTGAAGATgtaagaaagaagtttattgtcctataataaatatgaaaaatg-gtcaagtgcatcctcagtatatcattgttttat---gagtctatgcag
upper sequence: GLYMA18G31780.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S29_256V6.1 (Physcomitrella patens), 5'ss of exon 4
ATTACAAGATGGTTCGTTAATGGAGATTGCTAAAGTGTATCCTTTGGATGCAGTATATGACAATCCTGAAGATGTCCCGGAAGATgtaagagagaag--------tacataatagttatgaaaatacacaacgtacatttacaaaacttttcatcttctatttttttgttgaaaaattgtatag--
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GCTTCCCACCGGAGGATTACTCGAGATTGCCAAAGTGTATCCCTTAGATGCTGTATTCGACACTCCTGAAGATGTGCCTGAGGATgtaagtggaactgccccctctatgttacattaaggaccctac-tgataaatcctaagaatagggtttgtgttctttttcatcgtcggtaaaatagttatgaMapped 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|15813360|gb|BI785635.1|BI785635EST: TGTATCCTTTGGATGCAGTATATGACAATCCTGAAGATGTCCCGGAAGAT GTGAAAGCTAACAAACGCTATGCTGGAGCCACAAATTGGACTGTACAG
genomic: TGTATCCTTTGGATGCAGTATATGACAATCCTGAAGATGTCCCGGAAGATgtaagagaga ... aattgtatagGTGAAAGCTAACAAACGCTATGCTGGAGCCACAAATTGGACTGTACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTACAAGATGGTTCGTTAATGGAGATTGCTAAAGTGTATCCTTTGGATGCAGTATATGACAATCCTGAAGATGTCCCGGAAGATgtaagagagaagtacataatagttatgaaaatacacaacgtacatttacaaaacttttcatcttctatttttttgttgaaaaattgtatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA