Sequence
atgc intronic sequence ATGC exonic sequencegtaagtaatcaccttttaagctttacaatacattcagagccttgctgttggccattccaaattgaataaatcatgatgcagCTGCAGATGAAGATCCATTGCCGGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGG
Basic information
species | Glycine max |
transcript | GLYMA20G35770.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35770.4 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os05g01060.1 (Oryza sativa), 3'ss of exon 12
---gtaagtaatcacct-tttaagctttacaatacattc-----agagccttgctgttggccattccaaattgaataaatcatg---atgcagCTGCAGATGAAGATCCATTGCCGGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGG
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gtgttacatatttatatatattatatttattgaatattcttcttagtatttctttggctcttattgtaaaacatatttttcatgaataagcagCTGCAGATGATGACCCACTACCAGCCATAGAAGGGCTACGAATCACAGGTGAAGCTTTTCCTGGAAGAGAGCTTCAAGCAAGTGGCTACTCTATCAATGG
upper sequence: GLYMA20G35770.4 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os01g01800.2 (Oryza sativa), 3'ss of exon 12
gtaagta--atcaccttttaagctttacaatacattcagagccttgctgttggccattccaaattgaataaatcatgatgcagCTGCAGATGAAGATCCATTGCCGGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGG
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gtaattactattagaaataaatttatatatttgtttaacactaatgcaatctgatgatatattcctcttttatgaatatgtagCTGCTGAGGATGATCCACTGCCAGGCATAGAGGGCCTTCGAATCACAGGTGAAGCTTTTCCTGGAAGAGAACTCCAAGCAAGCGGGTACTCCACCAATGG
upper sequence: GLYMA20G35770.4 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G036206_T01 (Zea mays), 3'ss of exon 12
gtaagtaatcaccttttaagctttacaatacattcagagccttgctgttggccattccaaattgaataaatcatgatgcagCTGCAGATGAAGATCCATTGCCGGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGG
||||| | || || || | | || | || | | ||| || || || |||||||||| || ||||||||||| | ||||| || |||| ||| |||| ||| | ||||||||| |||||||||||| |||||||||||||||||||
----gtaattattattgaattaagttcgtattgtttaacactgcatattaatggatgcctatt--atgaac----atacagCTGCAGAGGATGATCCATTGCCAGGCATAGAAGGGCTTCGAATCACAGGTGAACCTTTTCCTGGACAAGAACTTCAAGCAGGTGGATACTCCATCAATGG
upper sequence: GLYMA20G35770.4 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G104377_T03 (Zea mays), 3'ss of exon 11
gtaagtaat-caccttttaagctttaca-atacattcagagccttgctgttggccattccaaattgaataa--atcatgatgcagCTGCAGATGAAGATCCATTGCCGGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGG
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----gtgtcgcatctttaaatccgtgcatatgcctactatattatctcagttatgatggtaaacaacatttttatgaatgtgcagTTGCAGAGGATGATCCGCTTCCAGCCATAGAAGGACTGCGAATCACAGGTGAAGCCTTTCCTGGAAGAGAACTTCAAGCAAGTGGGTACTCTATCCATGGMapped 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|17963067|gb|BM269820.1|BM269820EST: TCCTTATTTACCACCAGTTCTTGAAGAACCTTCTTCTTCATTTTCTGAGG ----A--TGAAGATCCATTGCCGGCTATAGAGGGTCTTCAAATTTCAGGAG
genomic: TCCTTATTTACCACCAGTTCTTGAAGAACCTTCTTCTTCATTTTCTGAGGgtaagtaatc ... catgatgcagCTGCAGATGAAGATCCATTGCCGGCTATAGAGGGTCTTCAAATTTCAGGAG
EST:
gi|21888872|gb|BQ742085.1|BQ742085EST: TCCTTATTTACCACCAGTTCTTGAAGAACCTTCTTCTTCATTTTCTGAGG CTGCAGATGAAGATCCATTGCCGGCTATAGAGGGTCTTCAAATTTCAGGAG
genomic: TCCTTATTTACCACCAGTTCTTGAAGAACCTTCTTCTTCATTTTCTGAGGgtaagtaatc ... catgatgcagCTGCAGATGAAGATCCATTGCCGGCTATAGAGGGTCTTCAAATTTCAGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatacattcagagccttgctgttggccattccaaattgaataaatcatgatgcagCTGCAGATGAAGATCCATTGCCGGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGG
aaattgaataaatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtaatcaccttttaagctttacaatacattcagagccttgctgttggccattccaaattgaataaatcatgatgcagCTGCAGATGAAGATCCATTGCCGGCTATAGAGGGTCTTCAAATTTCAGGAGAAGCCTTTCCTGGAAGGGAACTTCAAGCATGTGGATACTCCATCAATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG