Sequence
atgc intronic sequence ATGC exonic sequencegtactggaatatatttggttatcacatcaaaatgatatttcctaactatttgctgattttgttgtttcttttcttgcattaagGCTGCAAATGACTGTGAATTGGAACCTGTTGCTTATGAATTTTTCACCCAAGCTTATATTCTATATGAAGAAGAAATTTCT
Basic information
species | Glycine max |
transcript | GLYMA01G36870.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G36870.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM5G844195_T02 (Zea mays), 3'ss of exon 18
gtactggaatatatttggttatcacatcaaaatgatatttcctaactatttgctgattttgttgtttcttttcttgcattaagGCTGCAAATGACTGTGAATTGGAACCTGTTGCTTATGAATTTTTCACCCAAGCTTATATTCTATATGAAGAAGAAATTTCT
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------------gtatgtttgtgatactg---cgtattttcataattcttcatcttactctctgattatgttttta-atttagGCTGCCAATGACTGTGATTTGGAACCAGTTGCTTATGAGTTCTTTACTCAAGCGTTCATTTTATATGAAGAAGAAATCACG
upper sequence: GLYMA01G36870.1 (Glycine max), 3'ss of exon 16
lower sequence: GRMZM5G825524_T01 (Zea mays), 3'ss of exon 17
gtactggaatatatttggttatcacatcaaaatgatatttcctaactatttgctgattttgttgtttcttttcttgcattaagGCTGCAAATGACTGTGAATTGGAACCTGTTGCTTATGAATTTTTCACCCAAGCTTATATTCTATATGAAGAAGAAATTTCT
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------------gtatgcttgtaatactgcat--atttttgtaagtcttcctcttattatctgattatgtttcttg-atttagGCTGCCAATGACTGTGATTTGGAACCAGTTGCTTATGAGTTCTTTACTCAAGCGTTCATATTATATGAAGAAGAAATTGCG
upper sequence: GLYMA01G36870.1 (Glycine max), 3'ss of exon 16
lower sequence: AT3G51310.1 (Arabidopsis thaliana), 3'ss of exon 16
gtactggaatatatttggtt-atcacatcaa--aatgatatttcctaactatttgctgattttgttg----tttcttttcttgcat--taagGCTGCAAATGACTGTGAATTGGAACCTGTTGCTTATGAATTTTTCACCCAAGCTTATATTCTATATGAAGAAGAAATTTCT
||| || || | || ||| | | | | | || || | || | | || |||||||| ||| || | |||| |||||| ||||||| || ||| | ||||||||||| || ||||| | || ||| |||| |||||||||||||||||
gtatatgatcatttggactttggtgtatccactatcaaaaccaacaaaagatatagtgcatgagctgaaattttcttttattgaatctttagGCAGCAAATAACTGTGAGTTAGAAACAGTTGCTTATGAGTTCTTCACAAAGGCATATCTTCTGTATGAAGAAGAAATTTCA
upper sequence: GLYMA01G36870.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv04s0023g03870.t01 (Vitis vinifera), 3'ss of exon 17
-----------------gtactggaatatatttggttatcacatcaaaatgatatttcctaactatttgctgattttgttgtttcttttcttgcattaagGCTGCAAATGACTGTGAATTGGAACCTGTTGCTTATGAATTTTTCACCCAAGCTTATATTCTATATGAAGAAGAAATTTCT
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gtacatgagtatgttttgtgttaaaaatcattggtggaccatgtaacaaagctatgttagctctaaccagc-atcttctttttgattttgtaatatacagGCTGCAAATGATTGTGATTTGGAACCTGTTGCTTATGAATTTTTCACCCAAGCTTACATATTGTATGAAGAAGAAATTGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaatgatatttcctaactatttgctgattttgttgtttcttttcttgcattaagGCTGCAAATGACTGTGAATTGGAACCTGTTGCTTATGAATTTTTCACCCAAGCTTATATTCTATATGAAGAAGAAATTTCT
ttttgttgtttctttt CT-rich tract
taactattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactggaatatatttggttatcacatcaaaatgatatttcctaactatttgctgattttgttgtttcttttcttgcattaagGCTGCAAATGACTGTGAATTGGAACCTGTTGCTTATGAATTTTTCACCCAAGCTTATATTCTATATGAAGAAGAAATTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA