Sequence
atgc intronic sequence ATGC exonic sequence...ctgtcttctaattctctaccttcaaatcttcgatatcttaatttcagttgttcttttcctttatcttagtattcttttgttgtttgtcgagatgttacagATGCTTTCATCTAAGGACTTGAATTTTGTTGGATACACTTACAAGAACTTTGAAATTGTCAATGATTATCAAGTTCCTGGGATAG
Basic information
species | Glycine max |
transcript | GLYMA13G18670.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G18670.2 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os10g33640.1 (Oryza sativa), 3'ss of exon 10
---ctgtcttctaattctctaccttcaaatcttcgatatcttaatttcagttgttcttttcctttatcttagtattcttttgttgtttgtcgaga-tgttacagATGCTTTCATCTAAGGACTTGAATTTTGTTGGATACACTTACAAGAACTTTGAAATTGTCAATGATTATCAAGTTCCTGGGATAG
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tgatcaattattagtcattagctttggaaaatacagtat----atgcaaagaatttccaccttttagaagaaacatgatgacttacccattgtgtcttttgcagATGCTGTCTTCAAAGGATTTGAATTTTGTGGGCTACACGTACAAGAACTTCGAACTTGTGAATGATCCTGAAGTACTTGGAATGG
upper sequence: GLYMA13G18670.2 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G088245_T01 (Zea mays), 3'ss of exon 10
---ctgtcttctaattctctacct-----tcaaatct-tcgatatcttaatttcagttgttcttttcctttatcttagtattcttttgt-----tgtttgtcgagatgttacagATGCTTTCATCTAAGGACTTGAATTTTGTTGGATACACTTACAAGAACTTTGAAATTGTCAATGATTATCAAGTTCCTGGGATAG
|| | |||| | || ||| | | | | || || | | ||| || | | |||||| | | |||||| ||| ||| || | ||||||||||| || |||||| |||| ||||| || || || ||||||||||||||| |||| || ||| | | || || || || |
gtactaacacataataccttattaacttgtcagacttgtttacattttttctgcttttgaactgtctttaaatcttattctgtttttgtgtgtgtgtgtgttttga-actccagATGCTTTCTTCAAAGGACCTGAACTTTGTGGGCTATACCTACAAGAACTTTGAACTTGTGAACGATCACGATGTCCCCGGCATGG
upper sequence: GLYMA13G18670.2 (Glycine max), 3'ss of exon 10
lower sequence: Vv07s0005g03690.t01 (Vitis vinifera), 3'ss of exon 10
-ctgtcttctaattctctaccttcaaatcttcgatatcttaatttcagttgttcttttcctttatcttagtattcttttgttgtttgtcgagatgttacagATGCTTTCATCTAAGGACTTGAATTTTGTTGGATACACTTACAAGAACTTTGAAATTGTCAATGATTATCAAGTTCCTGGGATAG
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aatatgttaagagtctaaacttccatctgatgctattttttgttactgtt-tttttcttctttttccacattttctcatttcagttctctttattatgtagATGCTTTCATCGAAGGACATGAACTTTGTGGGTTATACGTATAAGAACTTTGAAATCATCAATGATTATCAAGTTCCTGGAATGG
upper sequence: GLYMA13G18670.2 (Glycine max), 3'ss of exon 10
lower sequence: PP1S86_100V6.1 (Physcomitrella patens), 3'ss of exon 10
----------------------------------------------------------------------------------------------ctgtcttctaattctctaccttcaaatcttcgatatcttaatttcagttgttcttttcctttatcttagtattcttttgttgtttgtcgagatgt-tacagATGCTTTCATCTAAGGACTTGAATTTTGTTGGATACACTTACAAGAACTTTGAAATTGTCAATGATTATCAAGTTCCTGGGATAG
| || |||| | | || || | | | | | | | || || ||| || | | ||| |||||||| ||||| |||||| |||| || || || |||||||||||||| ||||| |||||| | ||| | |||||||| || |
gtacacatatctctcaaatattctaagatttatcttacctaggctgctgcaagttgaatagctggtggccttggtcagcgccacagagcacattttaggttagaattgcatgtttgtaagtcactggagtgtcgaat--ggct--tcaagtctagaggaatagggaatattcaacatcagggtttatgagcgcagATGCTGTCATCGAAGGACGTGAACTTCGTGGGGTACACTTACAAGAATTTTGAGATTGTCCAGGATGCCAATGTTCCTGGAATTGMapped 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|51335217|gb|CO979083.1|CO979083EST: TCTGACAGCCAAAATCAATCATCATCAAGATCTGGTCCATGGAGGAAG ATGCTTTCATCTAAGGACTTGAATTTTGTTGGATACACTTACAAGAACTTT
genomic: TCTGACAGCCAAAATCAATCATCATCAAGATCTGGTCCATGGAGGAAGgtaatcttag ... gatgttacagATGCTTTCATCTAAGGACTTGAATTTTGTTGGATACACTTACAAGAACTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttgttcttttcctttatcttagtattcttttgttgtttgtcgagatgttacagATGCTTTCATCTAAGGACTTGAATTTTGTTGGATACACTTACAAGAACTTTGAAATTGTCAATGATTATCAAGTTCCTGGGATAG
tttatcttagtatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtcttctaattctctaccttcaaatcttcgatatcttaatttcagttgttcttttcctttatcttagtattcttttgttgtttgtcgagatgttacagATGCTTTCATCTAAGGACTTGAATTTTGTTGGATACACTTACAAGAACTTTGAAATTGTCAATGATTATCAAGTTCCTGGGATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC