Sequence
atgc intronic sequence ATGC exonic sequence...gctttctccttgacctttactttcatttgataaccgcattctgtcaccacagccataatttcagatggtagatttacatgaccgtttattgcctctgcagGTTCTGTATTTTTAGGGCCGTGGACACCAGAGAGCGTTGGTGATTATGCAAGTGGGACAAATCATGTTCTTCCCACTTATGGTTATGCAAGGATGTATGG
Basic information
species | Glycine max |
transcript | GLYMA08G08630.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g13190.1 (Oryza sativa), 3'ss of exon 12
gctttctccttgacctttactttcatttgataaccgcattctgtcaccacagccataatttcagatggtagatttacatgaccgtttattgcctctgcagGTTCTGTATTTTTAGGGCCGTGGACACCAGAGAGCGTTGGTGATTATGCAAGTGGGACAAATCATGTTCTTCCCACTTATGGTTATGCAAGGATGTATGG
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------gtataggcatacctgtcagcgtcttaatcttgacctg--aacattttcatacttc--aatggtaatctcaggcgatcgtttttt--catcacagGGTCGGTCTTCTTGGGACAATGGACCCCGGAGAGCGTGGGCGACTATGCAAGCGGCACAAACCATGTCCTTCCAACCTATGGTTACGCAAGGATGTATAG
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G058584_T01 (Zea mays), 3'ss of exon 14
------gctttctccttgacctttactttcatttgataaccgcattctgtcaccaca--------------gccataatttcagatggtagatttacatgaccgtttattgcctctgcagGTTCTGTATTTTTAGGGCCGTGGACACCAGAGAGCGTTGGTGATTATGCAAGTGGGACAAATCATGTTCTTCCCACTTATGGTTATGCAAGGATGTATGG
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gtaggcatattttttttgtcattagctttggtgtggtcacattgttcttcaagcagatggttccccttggggcatcaatcttgaattcttgatcgaaatatttggtttctttacct-cagGGTCAGTTTTCTTGGGCCAATGGACCCCAGAGAGCGTGGGCGATTATGCGAGCGGGACGAACCATGTCCTTCCGACCTATGGTTACGCAAGGATGTACAG
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv18s0166g00300.t01 (Vitis vinifera), 3'ss of exon 14
-------gctttctccttgacctttactttcatttgataaccgcattctgtcaccacagccataatttcagatggtagatttacatgaccgtttattgcctctgcagGTTCTGTATTTTTAGGGCCGTGGACACCAGAGAGCGTTGGTGATTATGCAAGTGGGACAAATCATGTTCTTCCCACTTATGGTTATGCAAGGATGTATGG
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tgattaagaaaaacaagagaccatgcagcccagtcaataactatgtt-tatcactg-----gtgtttttataatccagcctcatatcatttacttct-cctctgcagGTTCTGTGTTTTTAGGGCAGTGGACACCGGAAAGTGTGGGGGATTATGCAAGTGGAACAAACCATGTCCTTCCAACATATGGCTATGCACGGATGTATGGMapped 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|209698126|gb|BW661069.1|BW661069EST: TGTCAACACGAATGATGCAGAGAAGTGGGAGGGTTTTATTGAGAATGCAG GTTCTGTATTTTTAGGGCCGTGGACACCAGAGAGCGTTGGTGATTATGCAA
genomic: TGTCAACACGAATGATGCAGAGAAGTGGGAGGGTTTTATTGAGAATGCAGgtatggcttt ... gcctctgcagGTTCTGTATTTTTAGGGCCGTGGACACCAGAGAGCGTTGGTGATTATGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accacagccataatttcagatggtagatttacatgaccgtttattgcctctgcagGTTCTGTATTTTTAGGGCCGTGGACACCAGAGAGCGTTGGTGATTATGCAAGTGGGACAAATCATGTTCTTCCCACTTATGGTTATGCAAGGATGTATGG
ttgcctct CT-rich tract
ataatttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctttctccttgacctttactttcatttgataaccgcattctgtcaccacagccataatttcagatggtagatttacatgaccgtttattgcctctgcagGTTCTGTATTTTTAGGGCCGTGGACACCAGAGAGCGTTGGTGATTATGCAAGTGGGACAAATCATGTTCTTCCCACTTATGGTTATGCAAGGATGTATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - -ctccttg
- - - - - - - - - - - - - - - - - -gcattct
- - - - - - - - - - - - - - - - - - - - - - - ccacagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatggta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgacc