Sequence
atgc intronic sequence ATGC exonic sequence...ggggtagaactttactgtatgctgaagagtcttctaattgtcatctttcgtcttttctgtttcattctcttggagtggggctgttgactgtttgattacaGGGTATTGCTTTGCCTTAAGCGTGCTTTAAGGATTGCAAATGCTGCTCAACAAATGGCCAATGCAGCAAGGGGTAGCAGTGGTCCAGTGACGCTCTTTGT
Basic information
species | Glycine max |
transcript | GLYMA17G37870.1 |
intron # | 21 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 21
lower sequence: LOC_Os03g58700.1 (Oryza sativa), 3'ss of exon 20
ggggtagaactttactgtatgctgaagagtcttctaattgtcatctttcgtcttt----tctgtttcattctcttggagtggggctgttgactgtttgattacaGGGTATTGCTTTGCCTTAAGCGTGCTTTAAGGATTGCAAATGCTGCTCAACAAATGGCCAATGCAGCAAGGGGTAGCAGTGGTCCAGTGACGCTCTTTGT-
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--caaaaggcactactatatattcatta-tccttgaattatattcttgtatctatgaaaactgacaagtttttatttgttgcttctttgaattgtt--gttccagGGTCCTCCTTTGTTTAAAGCGTGCCTTAAGAATTGCAAATGCCGCTCAACAGATGGCTAATGTAACAAGGGGAAGTAGCGGATCTGTCGCGCTATTTATC
upper sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 21
lower sequence: GRMZM5G844195_T04 (Zea mays), 3'ss of exon 3
ggggtagaactttactgtatgctgaagagtctt-ctaattgtcatc---tttcgtcttttctgtttcattctcttggagtggggctgttgactgtttgattacaGGGTATTGCTTTGCCTTAAGCGTGCTTTAAGGATTGCAAATGCTGCTCAACAAATGGCCAATGCAGCAAGGGGTAGCAGTGGTCCAGTGACGCTCTTTGT-
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-aaatccaagttagtggta-actaaaggttatagccaactgctattgaattttgtccaacttgttaagagttactgacttc---ctaatcgaaactttgtttcagGGTTCTCCTTTGTTTGAAGCGTGCCTTGAGAATCGCAAATGCTGCTCAACAGATGGCTAGTGCTACAAGGGGGAGCAGTGGATCTGTAACCCTATTTATT
upper sequence: GLYMA17G37870.1 (Glycine max), 3'ss of exon 21
lower sequence: Vv18s0001g14680.t01 (Vitis vinifera), 3'ss of exon 20
-ggggtagaactttactgtatgctgaagagtcttctaattgtcatctttcgtcttttctgtttcattctcttggagtggggctgttgactgtttgattacaGGGTATTGCTTTGCCTTAAGCGTGCTTTAAGGATTGCAAATGCTGCTCAACAAATGGCCAATGCAGCAAGGGGTAGCAGTGGTCCAGTGACGCTCTTTGT-
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ggcaccaggcctttagttcatggcaaaggaatttgtactcttattaattagcagaaaccaaagaagtttttatgattacaa--gcagtttctggaattacagGGTCATGCTTTGCCTAAAGCGTGCATTAAGGATTGCCAATGCTGCTCAACAAATGGCCACCGTTGCACGGGGTAGCAGTGGACCGGTCATACTCTTTGTGMapped 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|151411598|gb|EV281409.1|EV281409EST: CTCTCATCTCTTTTGGGTTGATGATCAAGATGGTATTAAAGATGGAGAAA GGGTATTGCTTTGCCTTAAGCGTGCTTTAAGGATTGCAAATGCTGCTCAAC
genomic: CTCTCATCTCTTTTGGGTTGATGATCAAGATGGTATTAAAGATGGAGAAAggtatgctgg ... tttgattacaGGGTATTGCTTTGCCTTAAGCGTGCTTTAAGGATTGCAAATGCTGCTCAAC
EST:
gi|9564171|gb|BE473680.1|BE473680EST: CTCTCATCTCTTTTGGGTTGATGATCAAGATGGTATTAAAGATGGAGGAA GGGAATTGCTTTGCCTTAAG
genomic: CTCTCATCTCTTTTGGGTTGATGATCAAGATGGTATTAAAGATGGAGAAAggtatgctgg ... tttgattacaGGGTATTGCTTTGCCTTAAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcgtcttttctgtttcattctcttggagtggggctgttgactgtttgattacaGGGTATTGCTTTGCCTTAAGCGTGCTTTAAGGATTGCAAATGCTGCTCAACAAATGGCCAATGCAGCAAGGGGTAGCAGTGGTCCAGTGACGCTCTTTGT
tttgatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggggtagaactttactgtatgctgaagagtcttctaattgtcatctttcgtcttttctgtttcattctcttggagtggggctgttgactgtttgattacaGGGTATTGCTTTGCCTTAAGCGTGCTTTAAGGATTGCAAATGCTGCTCAACAAATGGCCAATGCAGCAAGGGGTAGCAGTGGTCCAGTGACGCTCTTTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
ggggtag
- - - - - - - - gtatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgac