Sequence
atgc intronic sequence ATGC exonic sequenceGCACCCATCCCCTTCAGTGCTAATTCCTGCTCTTCGAACTGTTGGAAATATTGTCACTGGAGATGATATGCAGACTCAGgtattttgtttaggaatgtctcttatggttgttatgtacagtaatgttacttttcctttctacattacagaataaggaaaacagtgatagcatgactatt...
Basic information
species | Glycine max |
transcript | GLYMA20G38320.3 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 5'ss of exon 7
GCACCCATCCCCTTCAGTGCTAATTCCTGCTCTTCGAACTGTTGGAAATATTGTCACTGGAGATGATATGCAGACTCAGgtattttgtttaggaat-gtctct-tatggttgttatgtacagtaatg-ttacttttcctttctacattaca-gaataaggaaaacagtgatagcatgactatt
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CCATCCATCACCTTCAGTGCTTATACCCGCACTACGAACTGTTGGAAATATTGTAACTGGAGATGACGCGCAAACTCAGgtattgtgttgattttttgcatctctatatctgacagattttgtatcaattgatatcaactactaagactcatgaatcttgagcttaatatttagaggtt----
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G088231_T01 (Zea mays), 5'ss of exon 7
GCACCCATCCCCTTCAGTGCTAATTCCTGCTCTTCGAACTGTTGGAAATATTGTCACTGGAGATGATATGCAGACTCAGgt---atttt--gtttag-gaatgtctcttatggttgttatgtacagtaatgttacttttcctttctacattacagaataaggaaaacagtgatagcatgactatt
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CCATCCATCACCATCGGTGCTTATACCTGCTCTACGAACTGTTGGGAATATTGTCACTGGAGATGATTTGCAAACTCAGgtgggatttcaagtttggtggctttcttctatgtccggcaaactttatgcaattagttatcagagctaaattt--gtgtggatatgattatt-tattatgggt---
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 6
---------------------GCACCCATCCCCTTCAGTGCTAATTCCTGCTCTTCGAACTGTTGGAAATATTGTCACTGGAGATGATATGCAGACTCAGgta----ttttgtttaggaatgtctcttatggttgttatgtacagta-atgttacttttcctttctacattacagaataaggaaaacagtgat-agcatgactatt
|| ||||| || || ||||| || |||||||| ||||||||||| || ||||| |||||||||||| ||| |||||||| ||| ||| || | | |||| | | || ||| | ||| || | | || ||| | || | | | | || |||
GTGTGCTGATACCACATGCAGCCATCCATCACCGTCGGTGCTTATACCTGCTCTACGAACTGTTGGGAACATTGTAACTGGAGATGATCAGCAAACTCAGgtggggctttaattttggcagctttcttctatatatttgacacactttatgcaaccagt--tatcagagttaatttttgtgggtatgattatttagtatggg----
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G091119_T01 (Zea mays), 5'ss of exon 7
GCACCCATCCCCTTCAGTGCTAATTCCTGCTCTTCGAACTGTTGGAAATATTGTCACTGGAGATGATATGCAGACTCAGgta----ttttgtttaggaatgtctcttatggttgttatgtacagta-atgttacttttcctttctacattacagaataaggaaaacagtgat-agcatgactatt
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CCATCCATCACCGTCGGTGCTTATACCTGCTCTACGAACTGTTGGGAACATTGTAACTGGAGATGATCAGCAAACTCAGgtggggctttaattttggcagctttcttctatatatttgacacactttatgcaaccagt--tatcagagttaatttttgtgggtatgattatttagtatggg----
upper sequence: GLYMA20G38320.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv14s0060g01510.t01 (Vitis vinifera), 5'ss of exon 7
GCACCCATCCCCTTCAGTGCTAATTCCTGCTCTTCGAACTGTTGGAAATATTGTCACTGGAGATGATATGCAGACTCAGgtattttg---tttaggaatgtctcttatggttgttatgtacagtaatgttacttttcctttctacattacagaataaggaaaacagtgatagca-tgactatt
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TCACCCATCTCCTTCTGTTCTCATTCCTGCACTTCGCACGGTTGGAAACATTGTCACTGGAGATGATATGCAAACCCAGgtattgcccacttaaaaaacatctgtaaatattttggtctcctgca-tgtaatccttttattcttaaaaatataa-aaggtcaactaagttactaacagcta--Mapped 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|16996647|gb|BM086019.1|BM086019EST: CTCTTCGAACTGTTGGAAATATTGTCACTGGAGATGATATGCAGACTCAG GTTATCATCAATCACCAGGCTCTTCCTTGCCTTCTTAATCTGTTG
genomic: CTCTTCGAACTGTTGGAAATATTGTCACTGGAGATGATATGCAGACTCAGgtattttgtt ... tgccccatagGTTATCATCAATCACCAGGCTCTTCCTTGCCTTCTTAATCTGTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCACCCATCCCCTTCAGTGCTAATTCCTGCTCTTCGAACTGTTGGAAATATTGTCACTGGAGATGATATGCAGACTCAGgtattttgtttaggaatgtctcttatggttgttatgtacagtaatgttacttttcctttctacattacagaataaggaaaacagtgatagcatgactatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaaca