Sequence
atgc intronic sequence ATGC exonic sequence...ttttccttcctttaaggaaaaaactctttttataccaatattgggatttgtcgaagaatcttttttggcagcctttctaacagtgattatctaaattcagGTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCTCCCATATTGTTGAGCTGTAAACACATGTTCTGTGAGGAGTGTGTATCTG
Basic information
species | Glycine max |
transcript | GLYMA06G14590.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G14590.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g07390.1 (Oryza sativa), 3'ss of exon 6
-----------------------------------------------------------------ttttccttcctttaaggaaaaaactctttttatacca-atattgggatttgtcgaagaatcttttttggcagcctttctaacagtgatt-----atctaaattcagGTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCTCCCATATTGTTGAGCTGTAAACACATGTTCTGTGAGGAGTGTGTATCTG
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gtaatctattatatgcttgaagcactaagtagttgttggctatcactgtcactgaatgtctagagtaatgatgacctgtgaaataagattgcatggacattgcatagtggacttt-tggcacactctatttt--ctatttttcttgacttgactcttgtgtgtctgttcagGTTAGTGCTACTGGAGATATGTGTGCTATATGCCAGGAAAAGATGCATACTCCCATTCTTTTGCGCTGTAAGCATATCTTTTGCGAGGATTGTGTCTCTG
upper sequence: GLYMA06G14590.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G141216_T02 (Zea mays), 3'ss of exon 6
-------ttttccttcctttaaggaaaaaactctttttataccaatattgggatttgtcgaagaatcttttttggcagcctttctaacagtgatta---tctaaattcagGTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCTCCCATATTGTTGAGCTGTAAACACATGTTCTGTGAGGAGTGTGTATCTG
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gtagctaacgtcacttcttcaacaaacacaaactgatgaaa--aattctgagatatgc-----attctgcattag-atccttcaacacacattttgtgttctgtgctcagGTAGTTGCTGCTGGAGACTTGTGTGCGATATGCCAAGAAAAGATGCATGTTCCCATCCTTTTGCGCTGCAAACATATCTTCTGTGAAGATTGTGTATCCG
upper sequence: GLYMA06G14590.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G061980_T01 (Zea mays), 3'ss of exon 6
ttttccttcctttaaggaaaaaactctttttataccaa--tattgggatttg--tcgaagaatcttttttggcagcctttctaacagtgattatctaaattcagGTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCTCCCATATTGTTGAGCTGTAAACACATGTTCTGTGAGGAGTGTGTATCTG
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---agagccttataagttatccaatgattttgttgtgagtccttaggatttgaatttgaaaatcctgtt-attagttgttttcttattgttgggcctaatgcagGTACTTGCTGCTGGTGATATGTGTGCCATTTGCCAGGAGAAGATGCATGTGCCTGTTCTCCTTCGCTGTAAACATATTTTCTGTGAAGACTGTGTTTCCGMapped 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|37994656|gb|CF806311.1|CF806311EST: CATTATCAAAAAAGGAAGTTCATTATGGGGTTTATGCCACAACGGAACAG GTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCT
genomic: CATTATCAAAAAAGGAAGTTCATTATGGGGTTTATGCCACAACGGAACAGgtaaataata ... ctaaattcagGTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCT
EST:
gi|51342137|gb|CO983398.1|CO983398EST: CATTATCAAAAAAGGAAGTTCATTATGGGGTTTATGCCACAACGGAACAG GTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCT
genomic: CATTATCAAAAAAGGAAGTTCATTATGGGGTTTATGCCACAACGGAACAGgtaaataata ... ctaaattcagGTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgtcgaagaatcttttttggcagcctttctaacagtgattatctaaattcagGTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCTCCCATATTGTTGAGCTGTAAACACATGTTCTGTGAGGAGTGTGTATCTG
tgattatctaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttccttcctttaaggaaaaaactctttttataccaatattgggatttgtcgaagaatcttttttggcagcctttctaacagtgattatctaaattcagGTGAATGCTGCTGGTGACTTGTGTGCTATATGCCAGGAGAAGATGCAGGCTCCCATATTGTTGAGCTGTAAACACATGTTCTGTGAGGAGTGTGTATCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - ccttcct
- - - - - - - - gaaaaaa
- - - - - - - - - - - - - - - - - - - - - -ggatttg