Sequence
atgc intronic sequence ATGC exonic sequencegtatgcaacaaatcacaaaagtaatagtgtacagcttgtgctatttggctcttaatttgcgctcgtatgatgtacagATGGTCTGCCATCATCTTAATAAGAATATTCCAGAAGATGTAGCTTTTGCTGAATCAAGAATAAGAGCTGAAACAATTGCTGCTGAAGATATTTTACATG
Basic information
species | Glycine max |
transcript | GLYMA11G37250.2 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 14
lower sequence: 13114.m00153 (Oryza sativa), 3'ss of exon 16
gtatgcaacaaatcacaaaagtaatagtgtacagcttgtgctatttggctcttaatttgcgctcgtatgatgtacagATGGTCTGCCATCATCTTAATAAGAATATTCCAGAAGATGTAGCTTTTGCTGAATCAAGAATAAGAGCTGAAACAATTGCTGCTGAAGATATTTTACATG
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------gtaaacttctcatcttgccgatgcttattttcttaaaatataacaataatttgtgcttgctccac-tccagATGGTCTGCCATCACCTCGATAGAAATATCCCAGAAGATGTAGCATTTGCCGAGTCTAGAATTCGAGCTGAAACAATAGCTGCTGAGGATATCTTGCATG
upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G461569_T01 (Zea mays), 3'ss of exon 13
gtatgcaacaaatcacaaaagtaatagtgtacagcttgtgctatttggctcttaatttgcgctcgtatgatgtacagATGGTCTGCCATCATCTTAATAAGAATATTCCAGAAGATGTAGCTTTTGCTGAATCAAGAATAAGAGCTGAAACAATTGCTGCTGAAGATATTTTACATG
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gtatgcaattatccaattcagcact-gtagatacagtgtacaattttcatggtaatatgttgtgat-tatagtgcagATGGTTTGTCACCACCTTGATAAAAACATTCCAGAAGATGTAGCATTTGCCGAGTCTAGAATTCGAGCTGAAACAATTGCTGCTGAGGACATATTGCATG
upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 14
lower sequence: AT1G67550.1 (Arabidopsis thaliana), 3'ss of exon 13
gtatgcaacaaatcacaaaagtaatagtgtacagcttgtgctatttggctcttaatttgcgctcgtatga---tgtacagATGGTCTGCCATCATCTTAATAAGAATATTCCAGAAGATGTAGCTTTTGCTGAATCAAGAATAAGAGCTGAAACAATTGCTGCTGAAGATATTTTACATG
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gtatgaga-attttatacgagtgatggtgaattgctt-tacttttgtcttgttaataacctcatatgcaaacacaaacagATGGTTTGCCATCACCTTGACAAGAACATCCCAGAAGATGTAGCTTTTGCTGAATCAAGAATAAGAGCTGAAACAATAGCTGCAGAGGATATATTGCATG
upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 13
gtatgcaacaaatcacaaaagtaatagtgtacagcttgtgctatttggctcttaatttgcgctcgtatgatgtacagATGGTCTGCCATCATCTTAATAAGAATATTCCAGAAGATGTAGCTTTTGCTGAATCAAGAATAAGAGCTGAAACAATTGCTGCTGAAGATATTTTACATG
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gtatgaaa-agattatgaagata-tatggtaactttttggacagttgacttgtaaattgatctg--attacatgcagATGGTCTGCCATCACCTTGATAAGGATATTCCAGAAGATGTAGCCTTTGCTGAATCACGAATAAGAGCTGAAACAATTGCTGCTGAAGACATTTTGCATGMapped 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|151394452|gb|EV264323.1|EV264323EST: CCACACGTCCTTATACACATAATACCATAGATGAGCATCTCGACATGTTG ATGGTCTGCCATCATCTTAATAAGAATATTCCA
genomic: CCACACGTCCTTATACACATAATACCATAGATGAGCATCTCGACATGTTGgtatgcaaca ... tgatgtacagATGGTCTGCCATCATCTTAATAAGAATATTCCA
EST:
gi|16278014|gb|BI942681.1|BI942681EST: CCACACGTCCTTATACACATAATACCATAGATGAGCATCTCGACATGTTG ATGGTCTGCCATCATCTTAATAAGAATATTCCAGAAGATGTAGCTGTTGCT
genomic: CCACACGTCCTTATACACATAATACCATAGATGAGCATCTCGACATGTTGgtatgcaaca ... tgatgtacagATGGTCTGCCATCATCTTAATAAGAATATTCCAGAAGATGTAGCTTTTGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatagtgtacagcttgtgctatttggctcttaatttgcgctcgtatgatgtacagATGGTCTGCCATCATCTTAATAAGAATATTCCAGAAGATGTAGCTTTTGCTGAATCAAGAATAAGAGCTGAAACAATTGCTGCTGAAGATATTTTACATG
tcttaat putative branch site (score: 3)
tcttaattt 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
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gtatgcaacaaatcacaaaagtaatagtgtacagcttgtgctatttggctcttaatttgcgctcgtatgatgtacagATGGTCTGCCATCATCTTAATAAGAATATTCCAGAAGATGTAGCTTTTGCTGAATCAAGAATAAGAGCTGAAACAATTGCTGCTGAAGATATTTTACATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA