Sequence
atgc intronic sequence ATGC exonic sequence...tgtagtatataatacgaatatgtagaggttcgacatttacttgtcttctttcctttctgtttacttactttccacttgctaattgtctgtttatctttcaGATGCTTATGATCCGCTTGACCCAAATGGGAATATCACAATCAAATGGGATATTATAAGCTGGACCCCTGATGGATATGT
Basic information
species | Glycine max |
transcript | GLYMA18G50760.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G50760.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g54750.1 (Oryza sativa), 3'ss of exon 1
tgtagtatataatacgaat-atgtagag-gttcgacatttacttgtcttctttcctttctgtttacttactttccacttgctaattgtctgtttatctttcaGATGCTTATGATCCGCTTGACCCAAATGGGAATATCACAATCAAATGGGATATTATAAGCTGGACCCCTGATGGATATGT-
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ccgcgaatttcttattagttgtgtggtgtgtaccttttaaatcggaatcgggatgtaacttaatgcttaattcatattctctctcttt---tttttcttgcagAAGCTTATGATTCGCTGGATCCAAATGGGAACATCACAATAAAATGGGACGTTATGCAATGGACTCCTGATGGTTACGTT
upper sequence: GLYMA18G50760.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g30260.1 (Oryza sativa), 3'ss of exon 1
tgtagtatataatacgaatatgtagaggttcgacatttacttgtctt--ctttcctttctgtt-tacttactttccacttgctaa--ttgtctgtttatctttcaGATGCTTATGATCCGCTTGACCCAAATGGGAATATCACAATCAAATGGGATATTATAAGCTGGACCCCTGATGGATATGT-
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-----ttcaggtttgcaaattgcagggtagccacatttatttgcttttactttgtgatatattatacatttttttttgttgtgaaatttgcctgtctctctg-cagAAGCATATGATCCTCTCGATCCAAATGGGAATATCACAATCAAGTGGGACATCACACAGTGGACCCCAGATGGCTATGTT
upper sequence: GLYMA18G50760.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os07g41310.1 (Oryza sativa), 3'ss of exon 1
-tgtagtatataatacgaatatgtagaggttcgacatttacttgtcttctttcctttctgt-ttacttactttccacttgctaattgtctgtttatctttcaGATGCTTATGATCCGCTTGACCCAAATGGGAATATCACAATCAAATGGGATATTATAAGCTGGACCCCTGATGGATATGT-
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atgcatgattaaccatcaaagatgagatgtgccctaccaaaacgttcttcaatctggatgtatcactaaattctgacttgtttcttg---atacattatgcagAGGCATACGATCCGCTTGATCCAAATGGGAACATAACAATCAAGTGGGATGTGCTGCAATGGACTCCAGATGGATATGTT
upper sequence: GLYMA18G50760.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM5G826714_T02 (Zea mays), 3'ss of exon 1
tgtagtatataatacgaatatgtagaggttcgacatttacttgtcttctttcctttctgtttacttactttccacttgctaattgtctgtttatcttt--caGATGCTTATGATCCGCTTGACCCAAATGGGAATATCACAATCAAATGGGATATTATAAGCTGGACCCCTGATGGATATGT-
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--tggaacgtaaatagactccatgtattgtgtgaattcattattcatccttctataattgggatctgtgttttgat-gtgaaccctgtgatcgctctctgcagAGGCTTATGATTCGCTGGATCCAAATGGCAACATCACCATAAAATGGGATATCATGCAGTGGACTCCTGATGGATATGTC
upper sequence: GLYMA18G50760.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0083g01160.t01 (Vitis vinifera), 3'ss of exon 1
tgtagtatataatacgaatatgtagaggttcgacatttacttgtcttctttcctttctgtttacttactttccacttgctaattgtctgtttatctttcaGATGCTTATGATCCGCTTGACCCAAATGGGAATATCACAATCAAATGGGATATTATAAGCTGGACCCCTGATGGATATGT-
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aatgttttctaatatctctat-tgtgtgtcagtgaaatatatatatttctcagaaaagggattgaagatttagccttatcttttgggtttctccttttcagAAGCCTATGATGCACTGGATCCCAATGGAAATATCACGATCAAATGGGATATTATGAGCTGGACTCCAGATGGCTATGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctttcctttctgtttacttactttccacttgctaattgtctgtttatctttcaGATGCTTATGATCCGCTTGACCCAAATGGGAATATCACAATCAAATGGGATATTATAAGCTGGACCCCTGATGGATATGT
tctgtttatctttc CT-rich tract
tttatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtagtatataatacgaatatgtagaggttcgacatttacttgtcttctttcctttctgtttacttactttccacttgctaattgtctgtttatctttcaGATGCTTATGATCCGCTTGACCCAAATGGGAATATCACAATCAAATGGGATATTATAAGCTGGACCCCTGATGGATATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - tatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgtctg