Sequence
atgc intronic sequence ATGC exonic sequencegtatttttatagttactacaaaaatcatttatgttttctttgagttcatgctaacatgtttctttttattctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacagGCAGATATATGGTCTCTGGGCATTACTGCAATAGAGATGGCAAAAGGGGAGCCTCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCC
Basic information
species | Glycine max |
transcript | GLYMA06G36130.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G36130.3 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G027756_T02 (Zea mays), 3'ss of exon 5
gtatttttatagttactacaaaaatcatttatgttttctttgagttcatgctaacatgtttctttttattctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacagGCAGATATATGGTCTCTGGGCATTACTGCAATAGAGATGGCAAAAGGGGAGCCTCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCC
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--------------------------------------------------------------------gtacttgtgcatttgctaaataaatttattagtagtgagcttttatagacaaggctgtttcaatgcagGCAGATATCTGGTCTTTAGGTATCACTGCCATTGAAATGGCTAAAGGTGAACCCCCTCTGGCAGATATTCATCCCATGAGAGTTCTTTTCATCATACCTC
upper sequence: GLYMA06G36130.3 (Glycine max), 3'ss of exon 8
lower sequence: AT1G53165.2 (Arabidopsis thaliana), 3'ss of exon 9
gtatttt-tatagttactacaaaaatcatttatgttttctttgagttcatgctaacatgtttctttttattctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgt-ttatacagGCAGATATATGGTCTCTGGGCATTACTGCAATAGAGATGGCAAAAGGGGAGCCTCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCC
|||| | | | | || | | ||| | | ||||| |||| | | | | |||| | ||| | ||| ||||| | |||| | | | | |||| ||| || || | |||||||||||||||||||| || || || ||||||||||||||||| || ||||| |||||||| |||||||| |||||||||||||| ||||| ||||
gtatctcgtccatctgctgtag----cttttgt-tgttcttctagtttacccaatc----ttctgtgtataccctgg--ctttacttgttttctagccctttctaattttgtcggtttctgcttctggtcttttccagGCAGATATATGGTCTCTTGGAATAACAATGATAGAGATGGCAAAAGGAGAACCTCCCCTTGCTGACCTTCATCCTATGAGAGTGCTTTTTATCATTCCCC
upper sequence: GLYMA06G36130.3 (Glycine max), 3'ss of exon 8
lower sequence: AT3G15220.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatttt-tatagttactacaaaaatcatttatgttttctttgagttcatgctaacat-gtttctttttattctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacagGCAGATATATGGTCTCTGGGCATTACTGCAATAGAGATGGCAAAAGGGGAGCCTCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCC
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gtatctcgcctatatact--gagcttcacttctcctagcttgacatgtgtgtttgtagaggctatacttgtttccttagcatatctaatattttttgccttcttttt----ctgttgctgggattgttgtc-atttagGCAGATATTTGGTCGCTCGGAATAACAGTTATTGAGATGGCAAAAGGAGAACCTCCCCTAGCTGACCTTCATCCCATGAGAGTGCTTTTTATCATTCCTC
upper sequence: GLYMA06G36130.3 (Glycine max), 3'ss of exon 8
lower sequence: Vv19s0014g02310.t01 (Vitis vinifera), 3'ss of exon 9
gtatttttatagttactacaaaaatcatttatgttttctttgagttcatgctaacatgtttctttttattctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacagGCAGATATATGGTCTCTGGGCATTACTGCAATAGAGATGGCAAAAGGGGAGCCTCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCC
| | || || | || || | | ||| || || | ||| | ||| || || | | | | || || | | | || ||||| ||||| ||||||||||| || |||||||| ||||||||||||||||||||||||||||| ||||| |||||||||||||||||||| || ||||| |
----------------------------tgaggtggtc--agtatttgtgttt-ctccttttttgccatgttttgtccatttggtgcttcc--tcccacttctgat--attattgggccatgaacaatg-atgcagGCGGATATTTGGTCTCTGGGAATAACTGCAATTGAGATGGCAAAAGGGGAGCCTCCACTTGCAGATCTCCATCCAATGAGAGTGCTTTTTATAATACCTC
upper sequence: GLYMA06G36130.3 (Glycine max), 3'ss of exon 8
lower sequence: PP1S84_190V6.1 (Physcomitrella patens), 3'ss of exon 7
gtatttttatagttactacaaaaatcatttatgttttctttgagttcatgctaacatgtttctttttattctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacagGCAGATATATGGTCTCTGGGCATTACTGCAATAGAGATGGCAAAAGGGGAGCC---TCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCC
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-----------------------ttcacttcc-cgtcgtttgtgttgaag--aggatgatggtagtgataaaaagctattcatttgtattc--cttcaatatctgagagcaagtggcttgcat--------tgcagGCAGATATATGTTCATTGGGAATCACTGCTATTGAGATGGCAAAAGGGGAACTGTATTCTCCAAGAGATTTT-------------------------------
upper sequence: GLYMA06G36130.3 (Glycine max), 3'ss of exon 8
lower sequence: PP1S59_173V6.1 (Physcomitrella patens), 3'ss of exon 7
gtatttttatagttactacaaaaatcatttatgttttctttgagttcatgctaacatgtttctttttattctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacagGCAGATATATGGTCTCTGGGCATTACTGCAATAGAGATGGCAAAAGGGGAGCCTCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCC
| | ||| | ||| || | | | | | | | | | ||| | || || | || ||| | | || | ||||||||||||||||| |||| || || || || |||||||||||||||||||| || || ||||| ||||| ||| | || ||||| | || ||
---------------------------atgctactttttgctcattcgtgttgaagggggttatgcttgtgatggaaagatcattctcatt-cattcaatagctgagagcaggtgattttcat--------tgcagGCAGATATATGGTCATTGGGGATCACCGCTATTGAGATGGCAAAAGGGGAGCCACCTTACGCAGATCTGCATCCTATGCGTGTTCTTTTTCTTATTCCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacagGCAGATATATGGTCTCTGGGCATTACTGCAATAGAGATGGCAAAAGGGGAGCCTCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCC
tcttgttt CT-rich tract
tttttgtttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttttatagttactacaaaaatcatttatgttttctttgagttcatgctaacatgtttctttttattctctgttcctttattgtttttgtttttatcccctaagaatcatcactctgtatcttgtttatacagGCAGATATATGGTCTCTGGGCATTACTGCAATAGAGATGGCAAAAGGGGAGCCTCCACTTGCTGATCTTCATCCAATGAGAGTGCTTTTCATCATACCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT