Sequence
atgc intronic sequence ATGC exonic sequencegtatgtttacgtctccataatcttatacttttttaccttacttctagaatttttcttgtcatctcatgatggtaacaacttaacacgcagAGGCTACTCCAAAGGGTGTGTTGAATCAAATGAAAGTTGAAGGTCTTACTATCTATCATGTAAAAAGCCACTTGCAG
Basic information
species | Glycine max |
transcript | GLYMA03G41040.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G41040.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G006477_T02 (Zea mays), 3'ss of exon 3
gtatgtttacgtctccataatcttatacttttttaccttacttctagaatttt---tcttgtcatctcatgatggtaacaacttaac-------------acgcagAGGCTACTCCAAAGGGTGTGTTGAATCAAATGAAAGTTGAAGGTCTTACTATCTATCATGTAAAAAGCCACTTGCAG-----------------------
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gtatgtctgccctattggcatttccc-ctcaaatagtttaagttatgaaccctacatcacatcatctaatgcatgtgtttatttatcttttcttattcctattcagAAGCTACTCCTAAGGGTGTGCTAAAGCTTATGAAAGTTGATGGTTTGACTATATATCATGTCAAAAGCCACCTGCAGGTTTGCTGTTTAGCTTTCTAAGT
upper sequence: GLYMA03G41040.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G006477_T01 (Zea mays), 3'ss of exon 3
gtatgtttacgtctccataatcttatacttttttaccttacttctagaatttt---tcttgtcatctcatgatggtaacaacttaac-------------acgcagAGGCTACTCCAAAGGGTGTGTTGAATCAAATGAAAGTTGAAGGTCTTACTATCTATCATGTAAAAAGCCACTTGCAG
|||||| | | || | || || ||| | ||| | || |||||| ||| || | ||| | | |||| |||||||| ||||||||| | || | ||||||||||| ||| | ||||| |||||||| ||||||||| |||||
gtatgtctgccctattggcatttccc-ctcaaatagtttaagttatgaaccctacatcacatcatctaatgcatgtgtttatttatcttttcttattcctattcagAAGCTACTCCTAAGGGTGTGCTAAAGCTTATGAAAGTTGATGGTTTGACTATATATCATGTCAAAAGCCACCTGCAG
upper sequence: GLYMA03G41040.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0036g01380.t01 (Vitis vinifera), 3'ss of exon 2
gtatgtttacgtctccataatcttatacttttttaccttact----tctagaatttttcttgtcatctcatgatggtaac-----aacttaacacgcagAGGCTACTCCAAAGGGTGTGTTGAATCAAATGAAAGTTGAAGGTCTTACTATCTATCATGTAAAAAGCCACTTGCAG
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gtatgta-gcactatcagagatattctcttcttgatgtgattaggctctaaggaagcatgggccgtcgttttgtgttcacttttggttttaacttacagGGGCGACTCCAAAGGGAATCTTGAAGCTTATGAATGTTGAAGGTCTGACCATCTATCATGTAAAAAGCCATCTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttacttctagaatttttcttgtcatctcatgatggtaacaacttaacacgcagAGGCTACTCCAAAGGGTGTGTTGAATCAAATGAAAGTTGAAGGTCTTACTATCTATCATGTAAAAAGCCACTTGCAG
tagaattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtttacgtctccataatcttatacttttttaccttacttctagaatttttcttgtcatctcatgatggtaacaacttaacacgcagAGGCTACTCCAAAGGGTGTGTTGAATCAAATGAAAGTTGAAGGTCTTACTATCTATCATGTAAAAAGCCACTTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG