Sequence
atgc intronic sequence ATGC exonic sequence...ttcttttattcttgtcacaattaataatgattctggacacacttgatgttgattggtatagggtatctcttttttatctcttcattatctgttcttgcagTTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTATTGCTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
Basic information
species | Glycine max |
transcript | GLYMA08G22140.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM2G443953_T01 (Zea mays), 3'ss of exon 20
ttcttttattcttgtcacaattaataatgattctggacacacttgatgttgattggtatagggtatctcttttttatctcttcattatctgttcttgcagTTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTATTGCTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
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tgttttctcttctaatataattaaaaggagtagctctcctactcttttcgagaaaaaaagtgatatgtaagcagctcccttgcatatttgagataaacagCTCGAGATGGCAGAAGAATGTCTTCTTCAAGCTACAGACTTTAGTGGGTTATTGCTTCTATATTCATCACTTGGAGATGCTGAAGGGATAACAAAACTGG
upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 19
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 19
ttcttttattcttgtcacaattaataatgattctggacacact--tgatgttgattggt-atagggtatctcttttttatctcttcattatctgttcttgcagTTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTATTGCTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
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---caatgccaatgagctttcttctagcttttgcggattcattgctgatatctactacttactaagtgattctcttgcatttgtgtgtgttctatcatgatagCTGCAATTGGCCGAGGATTGCATGAAGTACGCTATGGATTTGAGTGGTTTGTTACTACTATATTCTTCTTTGGGAGATGCTGAAGGGGTGTCAAAACTTG
upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 19
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 19
ttcttttattcttgtcacaattaa--taatgattctggacacacttgatgt-tgattggtatagggtatctcttttttatctcttcattatc----tgttcttgcagTTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTATTGCTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
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------tgtgggagcaacagcaaaatctctgtttctcgtctc-ctggatttgtctttgatgtggggatttccaactaactctttccgtttttatgtcatcatgacagCTGCAAATGGCTGAGGAATGCATGAAGTATGCGATGGATTTGAGTGGTTTGTTACTTCTTTATTCTTCTCTGGGAGATGCTGAAGGTGTAACAAAACTTG
upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 19
-ttctt---ttattctt-gtcacaattaataatgattctggacacacttgatgttgattggtatagggtatctcttttttatctcttcattatctgttcttgcagTTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTATTGCTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
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cttcgtgaattacccttcagtgctttagacaattatcacttgta-agtttttgttcattgattta--atcttttttttttttccctctgttatct--tattgcagTTAGAAATGGCTGAGGAATGTTTAAAGCATGCGATGGACTTGAGTGGTTTGTTGCTGCTCTATTCTTCTTTAGGAGATGCTGACGGAATATCAAAACTTG
upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 19
---ttcttttat--tcttgtcacaattaataatgattctggacacacttgatgttgattggtatagggtatctcttttttatctcttcattatctgttcttgcagTTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTATTGCTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
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tatgtcctagatcatattgcttcagatgaccaccactccccttccccctcctcttttttattccaatgt-----cttaatgtatgtactggaattgttaatgcagTTTGAGATGGCTGAGGAATGCCTTTTACACGCCATGGACTTGAGTGGTTTGTTGCTCCTCTATTCTTCTTTTGGTGATGCCAATGGAATATCAAAACTTGMapped 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|151411223|gb|EV281034.1|EV281034EST: GTGAGTCCAAATGGAAGCAATTGGGAGAATTAGCCATGTCTACTGGAAAG TTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTA
genomic: GTGAGTCCAAATGGAAGCAATTGGGAGAATTAGCCATGTCTACTGGAAAGgtgtttttct ... gttcttgcagTTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttgattggtatagggtatctcttttttatctcttcattatctgttcttgcagTTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTATTGCTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
tgttgat putative branch site (score: 4)
tctcttttttatctct putative PPT
tatctcttttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttttattcttgtcacaattaataatgattctggacacacttgatgttgattggtatagggtatctcttttttatctcttcattatctgttcttgcagTTAGAAATGGCCGAAGAGTGTTTAAAACAAGCAATGGATTTGAGTGGGTTATTGCTGCTATATTCTTCTTTAGGAGATGCTGAAGGAATATCAAAACTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - tgtcaca
- - - - - - - - - - - - - - gattctg
- - - - - - - - - - - - - - - - - -gacacac
- - - - - - - - - - - - - - - - - - - - - - gatgttg