Sequence
atgc intronic sequence ATGC exonic sequencegtgagtactttgactgtgaagttattgttttaatgttacacttagcactactatgaatcacttgctttctgtcttctctctcttcttgacaaaggtttattttgtttgagaatgtgattggtcatgttatatggagaaggataagtatatgttcacgtatgaatgttttttctgcctagGTCACTTCAAGGAAATAGACTAACTGGGAAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
Basic information
species | Glycine max |
transcript | GLYMA10G38730.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G38730.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g03970.1 (Oryza sativa), 3'ss of exon 9
gtgagtactttgactgtgaagttattgttttaatgttacacttagcactactatgaatcacttgctttctgtcttctctctcttcttgacaaaggtttattttgtttgagaatgtgattggtcatgttatatggagaaggataagtatatgttcacgtatgaatgttttttctgcctagGTCACTTCAAGGAAATAGACTAACTGGGAAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
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--------------------------------------------------gtaagtgttcctgagttattgcaaatcctctaacatgtaatctgctgtttcactcttatgcatatagatgctttacttaca-----------gcctttatgttgaaccatttctattcatgtt-catagGTCACTTCAAGGAAATAGACTGACTGGGAAAATTCCAGATGTGATTGGCCTGATGCAAGCTCTTGCTGTTCT
upper sequence: GLYMA10G38730.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G082855_T03 (Zea mays), 3'ss of exon 9
gtgagtactttgactgtgaagttattgttttaatgttacacttagcactactatgaatcacttgctttctgtcttctctctcttcttgacaaaggtttattttgtttgagaatgtgattggtcatgttatatggagaaggataagtatatgttcacgtatgaatgttttttctgcctagGTCACTTCAAGGAAATAGACTAACTGGGAAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
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------------------------------------------------------------------gtaagtcttc-ctgatgtcttga---attcttctttaattcagcagacttgt--gtactcatatatgtaccatgccgt-tctttgttttgatcattgcattgttgttttacagGTCACTTCAAGGAAATAGACTGATTGGCAAAATTCCTGAAGTGATTGGCCTCATGCAGGCTCTTGCTGTCCT
upper sequence: GLYMA10G38730.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv16s0022g02030.t01 (Vitis vinifera), 3'ss of exon 9
gtgagtactttgactgtgaagttattgttttaatgttacacttagcactactatgaatcacttgctttctgtcttctctctctt--cttgacaaaggt---ttattttgtttgagaatgtgattggtca-tgttatatggagaaggataagtatatgttcacgtatgaatgtt--ttttctgcctagGTCACTTCAAGGAAATAGACTAACTGGGAAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
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----------------------------------------------------gtaagctttctagtttagatcattcttttggaaactggacaaatgaaagttatttacttggggaagagcattgatcaatgttgtgaaatgattggtga-catgatttaagataaaactcttggttctttaatcagGTCACTCCAAGGAAATAAGCTAACAGGAAAGATTCCAGAGGTGATTGGTCTAATGCAAGCCCTTGCTGTTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttatatggagaaggataagtatatgttcacgtatgaatgttttttctgcctagGTCACTTCAAGGAAATAGACTAACTGGGAAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
tgttttttctgcct CT-rich tract
tatgaatgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtactttgactgtgaagttattgttttaatgttacacttagcactactatgaatcacttgctttctgtcttctctctcttcttgacaaaggtttattttgtttgagaatgtgattggtcatgttatatggagaaggataagtatatgttcacgtatgaatgttttttctgcctagGTCACTTCAAGGAAATAGACTAACTGGGAAGATTCCAGAAGTGATTGGTTTAATGCAAGCCCTTGCAATATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT