Sequence
atgc intronic sequence ATGC exonic sequence...gctagctttatttaattgcagatgtgcatcaatcatgtaatagcttatagttagcattagttaggcattttcttcttactatgttacattttatggtcagTGTTGGTGCTGGGTGCTCTCAACTGCTCTCAGATATGCAAGCTTTCAAG
Basic information
species | Glycine max |
transcript | GLYMA02G46190.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G46190.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os07g32670.1 (Oryza sativa), 3'ss of exon 7
gctagctttatttaattgcagatgtgcatcaatcatgtaatagcttatagttagcattagt--taggcattttcttcttactatgtt-acattt-tatggtcagTGTTGGTGCTGGGTGCTCTCAACTGCTCTCAGATATGCAAGCTTTCAAG
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----gcatcacagtcatataccttaatatcaatccactattattttttttttgatttaagtgatagagcaatggttgtgatgctgtttgtatttatactctcagTGTTGGTGCTGGGTGTTCTCAACTTCTATCAGATATGCAAGCCTTCAAG
upper sequence: GLYMA02G46190.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G076387_T01 (Zea mays), 3'ss of exon 7
gctagctttatttaattgcagatgtgca--tcaatca-tgtaatagcttatagttagcat-tagttaggca-ttttcttcttactatgttacattttatggtcagTGTTGGTGCTGGGTGCTCTCAACTGCTCTCAGATATGCAAGCTTTCAAG
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---tgtgtgatgatgtcctatatctacatttctgtcaatgcaatt-cttatacttgctaagtaataaaacagtttttgtgatgcttttttttattatttc-tcagTCTTGGTGCTGGATGCTCTCAACTTCTATCAGATATGCAGGCTTTCAAG
upper sequence: GLYMA02G46190.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv19s0090g00690.t01 (Vitis vinifera), 3'ss of exon 8
---gctagc-tttatttaattgcagatgtgcatcaatcatgtaatagcttatagttagcattagttaggcattttcttcttactatgttacattttatggtcagTGTTGGTGCTGGGTGCTCTCAACTGCTCTCAGATATGCAAGCTTTCAAG
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gaagcaagtgtttcctctactaaagataaatattctttttgttgttcctttaatctaggcattctttgacaatttgtc----tcattttttcccctatgctcagTGTTGGTGCTGGATGTTCTCAACTACTTTCAGACATGCAGGCTTTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatagttagcattagttaggcattttcttcttactatgttacattttatggtcagTGTTGGTGCTGGGTGCTCTCAACTGCTCTCAGATATGCAAGCTTTCAAG
ttcttac putative branch site (score: 2)
tatgttacattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gctagctttatttaattgcagatgtgcatcaatcatgtaatagcttatagttagcattagttaggcattttcttcttactatgttacattttatggtcagTGTTGGTGCTGGGTGCTCTCAACTGCTCTCAGATATGCAAGCTTTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - -gcagatg
- - - - - - - - - - - - - - - - -catgtaa