Sequence
atgc intronic sequence ATGC exonic sequence...taatacagagtggttactaaatccaagtttgttttagccagattatatcacatataatttctcttggttccaaggctgactgatttctttttctttttagTTACTAGGAGAACCTGGAACTGGTGGATCATCCACGCCATCGATGGTTGGTGCTGTTAAAAAATGGCAAAAGTCTGACCCTCAGAAATCCCTGGACACAT
Basic information
species | Glycine max |
transcript | GLYMA04G41570.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G41570.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os03g14830.1 (Oryza sativa), 3'ss of exon 7
taatacagagtggttactaaatccaagtttgttttagccagattatat-cacatataatttctcttggttccaaggctgactgatttctttttctttttagTTACTAGGAGAACCTGGAACTGGTGGATCATCCACGCCATCGATGGTTGGTGCTGTTAAAAAATGGCAAAAGTCTGACCCTCAGAAATCCCTGGACACAT
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ttattt-gattgcttgttgccttattgattagggagattgtgttctgttcgttgattgtaaggataagtactacttctgactatagggaattttttgttagCTTCTAGGGGAACCTGGAACTGGAGGATCATCCACTCCATCAATGGTTGGATCTGTGAAACAGTGGCAGAAGTCAGACCCTCAGAAATCCAAGGAGACAT
upper sequence: GLYMA04G41570.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G31910.1 (Arabidopsis thaliana), 3'ss of exon 9
-------------taatacagagtggttact-----aaatccaagtttgttttagccagattatatcacatataatttctcttggttccaaggc-tgactgatttctttttctttttagTTACTAGGAGAACCTGGAACTGGTGGATCATCCACGCCATCGATGGTTGGTGCTGTTAAAAAATGGCAAAAGTCTGACCCTCAGAAATCCCTGGACACAT
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gtaagcaaacaatcagacctaaattcttacctagaaaaacctgttgtgaacttcaccaacttcttatttctttgacttctgtgaaatctggtgtactaacaagatgttgtcttatttagTTCCTTGGAGAACCTGGAAGTGGTGGATCCTCCACACCATCAATGGTAGGTGCAGTAAAGAAGTGGCAAATGTCTGATCCAGAGAAGGCACGAGAAAACT
upper sequence: GLYMA04G41570.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv02s0012g02530.t01 (Vitis vinifera), 3'ss of exon 7
--taatacagagtggttactaaatccaagtttgttttagccagattatatcacatataatttctcttggttccaaggctgactgatttctttttctttt-tagTTACTAGGAGAACCTGGAACTGGTGGATCATCCACGCCATCGATGGTTGGTGCTGTTAAAAAATGGCAAAAGTCTGACCCTCAGAAATCCCTGGACACAT
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tagaatggtgagtccttaacag-cctttcttcatttcatggaaaccatgagatccattatttctttttagtt--accctttctggtcatggtggatgtggtagTTGCTAGGAGAACCAGGCGCTGGAGGTTCATCAACACCATCAATGGTAGGTGCTGTAAAGAAGTGGCAAAAGTCTGACCCTGAGAAGTCCCTAGAAACATMapped 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|11688327|gb|BF596003.1|BF596003EST: ATTGGGACCATGACACGACTGAGTTCTCTCTACCACCTTTGATGTCTCTT TTACTAGGAGAACCTGTAACTGGTGGATCATCCACGCCATCGATGGTTGGT
genomic: ATTGGGACCATGACACGACTGAGTTCTCTCTACCACCTTTGATGTCTCTTgtaagcaact ... ttctttttagTTACTAGGAGAACCTGGAACTGGTGGATCATCCACGCCATCGATGGTTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatcacatataatttctcttggttccaaggctgactgatttctttttctttttagTTACTAGGAGAACCTGGAACTGGTGGATCATCCACGCCATCGATGGTTGGTGCTGTTAAAAAATGGCAAAAGTCTGACCCTCAGAAATCCCTGGACACAT
gactgat putative branch site (score: 3)
ctgatttctttttctt CT-rich tract
atttctttttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatacagagtggttactaaatccaagtttgttttagccagattatatcacatataatttctcttggttccaaggctgactgatttctttttctttttagTTACTAGGAGAACCTGGAACTGGTGGATCATCCACGCCATCGATGGTTGGTGCTGTTAAAAAATGGCAAAAGTCTGACCCTCAGAAATCCCTGGACACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - agtggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggctga