Sequence
atgc intronic sequence ATGC exonic sequencegttagaaattgttttatgtgtatgacagttctcttaagttagtacaaaacatagtgatgtctgtttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACCACTCAGAAGAAAACTGCCTTGAATAGACTGGTTAAG
Basic information
species | Glycine max |
transcript | GLYMA19G39210.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G39210.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os03g07080.3 (Oryza sativa), 3'ss of exon 5
gt-tagaaattgttttatgtgtatgacagttctc--ttaagttagtacaa--aacatagtgatgtctg--tttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACCACTCAGAAGAAAACTGCCTTGAATAGACTGGTTAAG
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gtatctcaatggcagggtttttgttatagtcttcaattttcttcataccattcgtataatattttctgaacttcaatgtaggttgagTTTAATAAGGCTGCACAGTCTTTAACTGATGCAATTATTCCAGCTGCTCAAAGAAAAGTGGCTTTAACTCGATTGATTAAG
upper sequence: GLYMA19G39210.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G118467_T03 (Zea mays), 3'ss of exon 5
gttagaaattgttttatgtgtatgacagttctcttaagttagtacaaaacatagtgatgtctgtttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACCACTCAGAAGAAAACTGCCTTGAATAGACTGGTTAAG
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---gtacagttacttctgagtttg-tagttttggctggtttgcacctatctaattcttgcacttgcttgtgtagGTTGAGTTCAATAAGGCTGCACAGTCTTTAACAGATGCTATTATTCCTGCTGCCCAGAAAAGAGTGGCTTTAAGTCGATTGATTAAA
upper sequence: GLYMA19G39210.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G043509_T02 (Zea mays), 3'ss of exon 5
gttagaaattgttttatgtgtatgacagttctcttaagttagtacaaaacatagtgatgtctgtttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACCACTCAGAAGAAAACTGCCTTGAATAGACTGGTTAAG
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-gtatgatcacttctaggttcatagttattggct---ggttgcacctatctaattattgcacttttttgaatagGTTGAGTTCAATAAGGCTGCACAGTCCTTAACAGATGCGATTATTCCTTCTGCTCAGAAAAGACTGGCTTTAAATCGTTTGATTAAA
upper sequence: GLYMA19G39210.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G124051_T01 (Zea mays), 3'ss of exon 5
gttagaaattgttttat------gtgtatgacagttctcttaagttagtacaaaacatagtgatgtctgt------ttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACCACTCAGAAGAAAACTGCCTTGAATAGACTGGTTAAG
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gtcagtgccttctttttcctgcagtgtttgagagttgacttgatactat-cagcatctaatgctttctggactttgttatatgcagGTCGAGTTCAATAAGGCTGCACAGTCTTTAACTGATGCAATTATTCCTGCCGCTCAAAAAAAGTTAGCTCTAAATCGTTTGGTTAAG
upper sequence: GLYMA19G39210.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0007g07020.t01 (Vitis vinifera), 3'ss of exon 4
gttagaaattgttt-tat-gtgtatgacagttctcttaagttagtacaa--aacatagt-gatgtctgtttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACCACTCAGAAGAAAACTGCCTTGAATAGACTGGTTAAG
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gtaatgaagtgtttgtattatggactccagttttctgtggttattgcacttgctaaaatagatttatgcttgtatacagGTTGAATTTAATAAGGCTGCCCAGTCTTTGACGGACGCTGTGGTTCCAAGTGCTCAAAAGAAAACTGCTCTAAATCGACTAGTTAAGMapped 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|6501991|gb|AW203364.1|AW203364EST: GTGCAACATTTTTCCGTAGAGACAGATTTTCTCATGTGAAAAAATATGAG GTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACC
genomic: GTGCAACATTTTTCCGTAGAGACAGATTTTCTCATGTGAAAAAATATGAGgttagaaatt ... ttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACC
EST:
gi|208248499|gb|GE048140.1|GE048140EST: GTGCAACATTTTTCCGTAGAGACAGATTTTCTCATGTGAAAAAATATGAG GTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACC
genomic: GTGCAACATTTTTCCGTAGAGACAGATTTTCTCATGTGAAAAAATATGAGgttagaaatt ... ttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatgacagttctcttaagttagtacaaaacatagtgatgtctgtttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACCACTCAGAAGAAAACTGCCTTGAATAGACTGGTTAAG
tctgttt CT-rich tract
ttaagtta 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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gttagaaattgttttatgtgtatgacagttctcttaagttagtacaaaacatagtgatgtctgtttgcatgcagGTTGAATTTAATAAGGCTGCACAGTCTTTAACAGATGCTGTGATTCCGACCACTCAGAAGAAAACTGCCTTGAATAGACTGGTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA